5 Cassavabase workshop: contact us
•
0 likes•260 views
This document appears to be a list of names and organizations related to a contact page for CassavaBase. It includes names of individuals such as Lukas Mueller, Alex Ogbonna, and Naama Menda. It also lists organizations like BMGF (Bill & Melinda Gates Foundation). The page provides contact information and acknowledges various groups and people.
Report
Share
Report
Share
Download to read offline
Recommended
Weather Photographer of the Year 2017: Shortlist
The document lists the shortlist entries for the Weather Photographer of the Year 2017 competition. There are over 40 photographers from around the world who were selected for capturing impressive weather phenomena in photos such as fog, rainbows, blizzards, tornadoes, storms, and landscapes with interesting weather. The photos showcase the talent of weather photographers and the beauty found in atmospheric conditions around the globe.
Klick Klack Klub 31.10.09
The document is announcing an event at the Klick Klack Klub on October 31, 2009. It does not provide any other details about the event, such as what type of event it is or who is performing. The date and location of the event at the Klick Klack Klub is the only information given in the short, 3 word document.
Why Intro
This slideshow is an introduction to why it's okay, and even encouraged to know the "why" behind the standards of the church
BR Bulletin
The December 2011 issue of the Brecknock Bulletin provides information about upcoming events at Brecknock Elementary School. It notes that the school blog should be checked regularly for updates and announcements. Several holiday-related events are highlighted, including a Kids and Cultures assembly on December 12th and a 5th grade concert on December 20th. It also announces that the school will be closed from December 23rd through January 1st for the holiday break and that the superintendent will visit the school on January 5th for a parent question and answer session.
Presentation social media
This document appears to be a student paper written by Mike Bishop for a class called FA102B where the professor is listed as Klinkowstien. The document provides Mike Bishop's name, the class code and name, and identifies his professor for the class, but does not include any other context or content about the class or paper topic.
social studies digital learning day
The document outlines the agenda for a Digital Learning Day event. It includes introductions from EdScot, a presentation on the Digital Commonwealth initiative, discussions, and 5 minute presentations on various digital classroom tools from Russell Tarr, Annette Iafrete, Serge Zakuani, and Philip Donnolly. The event will conclude with a reconnect session on Glow and evaluations. The goal is to transform lives through learning with a focus on digital tools and resources.
Cassavabase SolGS presentation PAG 2016
The document describes solGS, a web-based tool for genomic selection in plant and animal breeding. solGS allows users to store genotype and phenotype data, compose training populations, build prediction models using RR-BLUP or GBLUP, predict breeding values for selection candidates, and perform additional analyses like estimating genetic correlations and calculating selection indices. The tool addresses challenges of large genomic data volumes and enables data cleaning, imputation, statistical modeling, and interactive visualization. Models are fitted using 10-fold cross-validation, and solGS provides options for composing training populations by trait, trial, or custom individual lists.
1 introduction to cassavabase
Cassavabase is a database for cassava and related crops that allows users to search accessions and trial plots, manage breeding programs and trials, analyze genomic selection tools, and visualize genomic data. It contains data for over 80,000 accessions, 300,000 trial plots, 8 million phenotypic observations, and 2 billion genotypic datapoints. Users must create an account to access full database privileges like submitting trials or phenotypic data. The database is open to all cassava breeders and part of a collaborative effort for genomic selection in African cassava breeding programs.
Recommended
Weather Photographer of the Year 2017: Shortlist
The document lists the shortlist entries for the Weather Photographer of the Year 2017 competition. There are over 40 photographers from around the world who were selected for capturing impressive weather phenomena in photos such as fog, rainbows, blizzards, tornadoes, storms, and landscapes with interesting weather. The photos showcase the talent of weather photographers and the beauty found in atmospheric conditions around the globe.
Klick Klack Klub 31.10.09
The document is announcing an event at the Klick Klack Klub on October 31, 2009. It does not provide any other details about the event, such as what type of event it is or who is performing. The date and location of the event at the Klick Klack Klub is the only information given in the short, 3 word document.
Why Intro
This slideshow is an introduction to why it's okay, and even encouraged to know the "why" behind the standards of the church
BR Bulletin
The December 2011 issue of the Brecknock Bulletin provides information about upcoming events at Brecknock Elementary School. It notes that the school blog should be checked regularly for updates and announcements. Several holiday-related events are highlighted, including a Kids and Cultures assembly on December 12th and a 5th grade concert on December 20th. It also announces that the school will be closed from December 23rd through January 1st for the holiday break and that the superintendent will visit the school on January 5th for a parent question and answer session.
Presentation social media
This document appears to be a student paper written by Mike Bishop for a class called FA102B where the professor is listed as Klinkowstien. The document provides Mike Bishop's name, the class code and name, and identifies his professor for the class, but does not include any other context or content about the class or paper topic.
social studies digital learning day
The document outlines the agenda for a Digital Learning Day event. It includes introductions from EdScot, a presentation on the Digital Commonwealth initiative, discussions, and 5 minute presentations on various digital classroom tools from Russell Tarr, Annette Iafrete, Serge Zakuani, and Philip Donnolly. The event will conclude with a reconnect session on Glow and evaluations. The goal is to transform lives through learning with a focus on digital tools and resources.
Cassavabase SolGS presentation PAG 2016
The document describes solGS, a web-based tool for genomic selection in plant and animal breeding. solGS allows users to store genotype and phenotype data, compose training populations, build prediction models using RR-BLUP or GBLUP, predict breeding values for selection candidates, and perform additional analyses like estimating genetic correlations and calculating selection indices. The tool addresses challenges of large genomic data volumes and enables data cleaning, imputation, statistical modeling, and interactive visualization. Models are fitted using 10-fold cross-validation, and solGS provides options for composing training populations by trait, trial, or custom individual lists.
1 introduction to cassavabase
Cassavabase is a database for cassava and related crops that allows users to search accessions and trial plots, manage breeding programs and trials, analyze genomic selection tools, and visualize genomic data. It contains data for over 80,000 accessions, 300,000 trial plots, 8 million phenotypic observations, and 2 billion genotypic datapoints. Users must create an account to access full database privileges like submitting trials or phenotypic data. The database is open to all cassava breeders and part of a collaborative effort for genomic selection in African cassava breeding programs.
Musa base phenotyping workflow demo
This document outlines the steps and procedures for demonstrating the Musabase phenotyping workflow, including:
1) Creating trials, accessions, crosses, and lists in Musabase
2) Designing fieldbook layouts and trait lists for phenotyping
3) Using the Android Fieldbook app to record phenotypes in the field
4) Uploading the exported phenotype data into Musabase
SGN UPLB 2016
The Sol Genomics Network provides bioinformatics tools for plant genomics and breeding research. It hosts genome sequences and data for several crops including tomato, potato, tobacco, pepper, and coffee. Tools on the site include JBrowse for genome browsing, BLAST for sequence searches, and tools for managing breeding programs. The network also develops specialized tools like one for designing virus-induced gene silencing constructs and a high-resolution tomato gene expression atlas. The presentation highlighted these genomics resources and tools to support research on solanaceous and other crops.
YamBase phenotyping workflow demo
- The document demonstrates the YamBase workflow for phenotyping, which includes creating a cross with progenies, listing accessions and traits, making a trial, generating fieldbook files, recording data on a tablet, exporting phenotypes, and uploading to YamBase.
- It also shows how to create a genotyping trial in YamBase and upload historic phenotype data from existing trials by importing the trial information and phenotype files.
- The goal is to provide an end-to-end demonstration of the YamBase platform for managing yam breeding data.
Cassavabase general presentation PAG 2016
CASSAVABASE is a central data store for genomic and phenotypic data from the NEXTGEN CASSAVA project, which aims to accelerate breeding of African cassava through genomic selection. It currently contains over 80,000 accessions and 2.5 billion phenotypic observations. CASSAVABASE allows users to search, manage, analyze and visualize diverse data types to support cassava breeding. Ongoing work involves developing new analysis tools, improving existing tools, and establishing mirror sites for African users.
Introduction to YamBase
This document provides an outline for a YamBase workshop held in Cotonou, Benin in March 2016. The workshop agenda covers an overview of YamBase, account creation and login, searching YamBase, working with lists, the search wizard, managing data, and uploading various types of data including accessions, images, pedigrees, crosses, and field trial data. The document explains what YamBase is, its benefits, and how to access and use the YamBase test site. It also covers the YamBase data structure and account privileges, and includes exercises for participants to complete hands-on with the YamBase test server during the workshop.
2 Cassavabase workshop: search menu
search for germplasm accessions, trials, phenotypes using single or multi criterai seach tools in cassavabase
Cassavabase workshop IITA oct2016
The document summarizes a NextGen Cassava workshop held at IITA Ibadan in October 2016. The workshop aimed to train attendees in using Cassavabase for cassava breeding data management and analysis. Over two days, participants learned how to search and manage data, design trials, record phenotypes using Fieldbook, analyze data, and utilize genomic selection and crossing tools. Hands-on exercises helped attendees practice the various Cassavabase functions. Support was provided for using the tool and participants received homework assignments.
Introduction to SQL
The document provides an overview of relational and non-relational databases as well as SQL syntax and commands. It discusses PostgreSQL and how to connect to databases, create and alter roles and permissions, and perform basic SQL commands. It also covers database development topics like creating, importing, exporting, and deleting databases and schemas. Table structures, relationships, and normalization are explained.
SolGS Hyderabad conference 2016
This document describes solGS, a web-based tool for genomic selection analysis. solGS allows users to store phenotypic and genotypic data, perform pre-modeling data processing like handling missing values, build prediction models using methods like RR-BLUP and GBLUP, estimate breeding values of selection candidates, and conduct additional analyses like estimating genetic correlations and calculating selection indices. The tool aims to make genomic selection more accessible for plant breeders by providing a platform for organizing and analyzing genomic data.
SolGS workshop 2016
solGS is a web-based tool for genomic selection analysis that allows users to store data, build prediction models, and estimate breeding values. It offers three options for composing a training population: searching by trait, searching for trials, or using a custom list. Models can then be applied to estimate breeding values for selection candidates, analyze genetic correlations, and calculate selection indices. The tool aims to advance genomic selection in plant breeding.
Improvements in the Tomato Reference Genome (SL3.0) and Annotation (ITAG3.0)
The document describes improvements made to the tomato reference genome sequence (SL3.0) and its annotation (ITAG3.0). Over 1,000 BAC sequences were integrated which reduced contig gaps by 11 Mb. Optical maps from BioNano helped assemble the genome into 57 scaffolds with an N50 of 25.4 Mb. The ITAG3.0 annotation includes over 5,800 novel genes identified through RNA sequencing evidence and ab initio prediction. The updated annotation shows improvements in gene structures and functional annotations compared to the previous version.
Sl4.0 and ITAG4.0
This document summarizes the Solanum lycopersicum Heinz 1706 genome assembly SL4.0 and its annotation ITAG4.0 from the Sol Genomics Network. Key points include: SL4.0 has an improved assembly compared to previous versions with longer contigs and less unplaced sequence. It was generated using PacBio and Illumina sequencing. The annotation ITAG4.0 contains 34,075 protein-coding genes compared to 34,725 in the previous version, with improvements in 5' and 3' UTR identification. Novel genes in ITAG4.0 are enriched for stress response functions. Validation was performed using various omics datasets and optical mapping.
Cassavabase-PhenoApps demo ISTRC 2018
This document summarizes a presentation on breeding data management and analysis tools using the Cassavabase database. It describes how Cassavabase collects phenotypic and genotypic data from various programs and ensures data quality. Over 9 million phenotypic observations, 2488 trials and 34,000 genotypes have been collected. It also discusses expanding interoperability through APIs and partnerships with other crop databases. The presentation demonstrates using Cassavabase to access trial data, visualize genotypes, perform statistical analysis, genomic prediction and multi-trait selection to increase genetic gain.
Cassavabase-PhenoApp sample tracking
This document provides instructions for sampling cassava plants for genotyping using the Cassavabase database and Coordinate mobile app. It describes how to:
1. Design a field trial and generate barcodes in Cassavabase
2. Use the Coordinate app to collect samples according to the trial template and export the sample data
3. Upload the template and sample data to Cassavabase
4. Submit the genotyping order to the service provider
The goal is to efficiently collect samples from the field trial and prepare the data for genotyping.
breeding informatics solutions at SGN
The document discusses breeding informatics solutions provided by the Sol Genomics Network (SGN). SGN aims to create a one-stop digital ecosystem for high-throughput breeding data. It provides database, field work tools, trial design and analysis tools to facilitate efficient data collection, sharing, analysis and knowledge discovery. Key features include linking genetic data to genomes and maps through ontologies, registering genetic material and designing trials and plates, field phenotype data collection apps, exploratory data analysis tools, and genomic selection tools. The goal is an integrated system for access, analysis and utilization of genetic data.
Musabase PAG 2018
Musabase is a phenotyping and breeding database for bananas that aims to connect data within and between banana breeding projects. It digitizes field data collection through tools like barcoding and digital forms. The database integrates data from various sources like field trials, surveys, sequencing data and tissue culture. It links this in situ breeding data to ex situ conservation resources to create a "digital ecosystem" for banana breeders and researchers. Future work will expand collaboration and train local partners to continue developing open-source tools to improve banana improvement for smallholder farmers.
Cassavabase workshop ibadan March17
This document outlines an agenda for a Cassavabase workshop to be held in Ibadan, Nigeria in March 2017. It provides details on the workshop objectives, audience, attendees, an overview of Cassavabase, and exercises for days 1 and 2. The objectives are to train attendees on using Cassavabase for data loading, visualization, analysis and breeding management through hands-on examples. The audience includes trial managers, data curators/analysts, and scientists/PhD students. Details are provided on checking accounts, tablets, and websites for training. The agenda covers searching, downloading accessions, list management, barcoding, fieldbook use, phenotype analysis including selection indices and genomic selection, and solving issues.
Sql cheat sheet
This document provides a cheat sheet for using SQL commands to interact with PostgreSQL databases, schemas, tables, and data. It lists commands for connecting to databases (\c) and schemas (\dn), viewing table details (\d), and sending output to a file (\o). It also summarizes commands for data manipulation like INSERT, UPDATE, DELETE, and transactions using BEGIN and COMMIT. Finally, it outlines common SQL queries using SELECT, WHERE, ORDER BY, LIMIT, JOIN and other clauses.
Cassavabase SolGS poster PAG 2016
solGS is a web-based tool that addresses challenges in genomic selection including data management, analysis, and sharing results. It stores phenotype and genotype data in a database and provides an intuitive interface for statistical modeling, visualization, and estimating genomic breeding values. Breeders can build prediction models from training populations, validate models, and estimate genomic estimated breeding values for selection candidates to select best individuals. The open-source code can be adapted to any breeding program.
3a Cassavabase worksop: manage breeding-program ands locations
This tutorial teaches how to manage breeding programs and locations in CASSAVABASE by allowing the user to create new breeding programs and locations from the "Manage" menu. It covers setting up breeding programs under the "Manage breeding programs" section and setting up locations under the "Manage locations" section to organize data.
3b Cassavabase workshop: manage accessions
This document provides a tutorial on how to manage accessions in CASSAVABASE, including searching for accessions, viewing accession detail pages, editing pedigrees, finding related trials and populations, adding pedigrees for multiple accessions, and using the pedigree feature to find parents and progenies of accessions.
3c Cassavabase workshop: manage-crosses
This document provides instructions for managing crosses in a database, including creating and editing populations to define parents and siblings, creating new crosses, uploading data to new crosses, and adding progenies to existing crosses.
More Related Content
Viewers also liked
Musa base phenotyping workflow demo
This document outlines the steps and procedures for demonstrating the Musabase phenotyping workflow, including:
1) Creating trials, accessions, crosses, and lists in Musabase
2) Designing fieldbook layouts and trait lists for phenotyping
3) Using the Android Fieldbook app to record phenotypes in the field
4) Uploading the exported phenotype data into Musabase
SGN UPLB 2016
The Sol Genomics Network provides bioinformatics tools for plant genomics and breeding research. It hosts genome sequences and data for several crops including tomato, potato, tobacco, pepper, and coffee. Tools on the site include JBrowse for genome browsing, BLAST for sequence searches, and tools for managing breeding programs. The network also develops specialized tools like one for designing virus-induced gene silencing constructs and a high-resolution tomato gene expression atlas. The presentation highlighted these genomics resources and tools to support research on solanaceous and other crops.
YamBase phenotyping workflow demo
- The document demonstrates the YamBase workflow for phenotyping, which includes creating a cross with progenies, listing accessions and traits, making a trial, generating fieldbook files, recording data on a tablet, exporting phenotypes, and uploading to YamBase.
- It also shows how to create a genotyping trial in YamBase and upload historic phenotype data from existing trials by importing the trial information and phenotype files.
- The goal is to provide an end-to-end demonstration of the YamBase platform for managing yam breeding data.
Cassavabase general presentation PAG 2016
CASSAVABASE is a central data store for genomic and phenotypic data from the NEXTGEN CASSAVA project, which aims to accelerate breeding of African cassava through genomic selection. It currently contains over 80,000 accessions and 2.5 billion phenotypic observations. CASSAVABASE allows users to search, manage, analyze and visualize diverse data types to support cassava breeding. Ongoing work involves developing new analysis tools, improving existing tools, and establishing mirror sites for African users.
Introduction to YamBase
This document provides an outline for a YamBase workshop held in Cotonou, Benin in March 2016. The workshop agenda covers an overview of YamBase, account creation and login, searching YamBase, working with lists, the search wizard, managing data, and uploading various types of data including accessions, images, pedigrees, crosses, and field trial data. The document explains what YamBase is, its benefits, and how to access and use the YamBase test site. It also covers the YamBase data structure and account privileges, and includes exercises for participants to complete hands-on with the YamBase test server during the workshop.
2 Cassavabase workshop: search menu
search for germplasm accessions, trials, phenotypes using single or multi criterai seach tools in cassavabase
Cassavabase workshop IITA oct2016
The document summarizes a NextGen Cassava workshop held at IITA Ibadan in October 2016. The workshop aimed to train attendees in using Cassavabase for cassava breeding data management and analysis. Over two days, participants learned how to search and manage data, design trials, record phenotypes using Fieldbook, analyze data, and utilize genomic selection and crossing tools. Hands-on exercises helped attendees practice the various Cassavabase functions. Support was provided for using the tool and participants received homework assignments.
Introduction to SQL
The document provides an overview of relational and non-relational databases as well as SQL syntax and commands. It discusses PostgreSQL and how to connect to databases, create and alter roles and permissions, and perform basic SQL commands. It also covers database development topics like creating, importing, exporting, and deleting databases and schemas. Table structures, relationships, and normalization are explained.
SolGS Hyderabad conference 2016
This document describes solGS, a web-based tool for genomic selection analysis. solGS allows users to store phenotypic and genotypic data, perform pre-modeling data processing like handling missing values, build prediction models using methods like RR-BLUP and GBLUP, estimate breeding values of selection candidates, and conduct additional analyses like estimating genetic correlations and calculating selection indices. The tool aims to make genomic selection more accessible for plant breeders by providing a platform for organizing and analyzing genomic data.
SolGS workshop 2016
solGS is a web-based tool for genomic selection analysis that allows users to store data, build prediction models, and estimate breeding values. It offers three options for composing a training population: searching by trait, searching for trials, or using a custom list. Models can then be applied to estimate breeding values for selection candidates, analyze genetic correlations, and calculate selection indices. The tool aims to advance genomic selection in plant breeding.
Improvements in the Tomato Reference Genome (SL3.0) and Annotation (ITAG3.0)
The document describes improvements made to the tomato reference genome sequence (SL3.0) and its annotation (ITAG3.0). Over 1,000 BAC sequences were integrated which reduced contig gaps by 11 Mb. Optical maps from BioNano helped assemble the genome into 57 scaffolds with an N50 of 25.4 Mb. The ITAG3.0 annotation includes over 5,800 novel genes identified through RNA sequencing evidence and ab initio prediction. The updated annotation shows improvements in gene structures and functional annotations compared to the previous version.
Viewers also liked (11)
Improvements in the Tomato Reference Genome (SL3.0) and Annotation (ITAG3.0)
Improvements in the Tomato Reference Genome (SL3.0) and Annotation (ITAG3.0)
More from solgenomics
Sl4.0 and ITAG4.0
This document summarizes the Solanum lycopersicum Heinz 1706 genome assembly SL4.0 and its annotation ITAG4.0 from the Sol Genomics Network. Key points include: SL4.0 has an improved assembly compared to previous versions with longer contigs and less unplaced sequence. It was generated using PacBio and Illumina sequencing. The annotation ITAG4.0 contains 34,075 protein-coding genes compared to 34,725 in the previous version, with improvements in 5' and 3' UTR identification. Novel genes in ITAG4.0 are enriched for stress response functions. Validation was performed using various omics datasets and optical mapping.
Cassavabase-PhenoApps demo ISTRC 2018
This document summarizes a presentation on breeding data management and analysis tools using the Cassavabase database. It describes how Cassavabase collects phenotypic and genotypic data from various programs and ensures data quality. Over 9 million phenotypic observations, 2488 trials and 34,000 genotypes have been collected. It also discusses expanding interoperability through APIs and partnerships with other crop databases. The presentation demonstrates using Cassavabase to access trial data, visualize genotypes, perform statistical analysis, genomic prediction and multi-trait selection to increase genetic gain.
Cassavabase-PhenoApp sample tracking
This document provides instructions for sampling cassava plants for genotyping using the Cassavabase database and Coordinate mobile app. It describes how to:
1. Design a field trial and generate barcodes in Cassavabase
2. Use the Coordinate app to collect samples according to the trial template and export the sample data
3. Upload the template and sample data to Cassavabase
4. Submit the genotyping order to the service provider
The goal is to efficiently collect samples from the field trial and prepare the data for genotyping.
breeding informatics solutions at SGN
The document discusses breeding informatics solutions provided by the Sol Genomics Network (SGN). SGN aims to create a one-stop digital ecosystem for high-throughput breeding data. It provides database, field work tools, trial design and analysis tools to facilitate efficient data collection, sharing, analysis and knowledge discovery. Key features include linking genetic data to genomes and maps through ontologies, registering genetic material and designing trials and plates, field phenotype data collection apps, exploratory data analysis tools, and genomic selection tools. The goal is an integrated system for access, analysis and utilization of genetic data.
Musabase PAG 2018
Musabase is a phenotyping and breeding database for bananas that aims to connect data within and between banana breeding projects. It digitizes field data collection through tools like barcoding and digital forms. The database integrates data from various sources like field trials, surveys, sequencing data and tissue culture. It links this in situ breeding data to ex situ conservation resources to create a "digital ecosystem" for banana breeders and researchers. Future work will expand collaboration and train local partners to continue developing open-source tools to improve banana improvement for smallholder farmers.
Cassavabase workshop ibadan March17
This document outlines an agenda for a Cassavabase workshop to be held in Ibadan, Nigeria in March 2017. It provides details on the workshop objectives, audience, attendees, an overview of Cassavabase, and exercises for days 1 and 2. The objectives are to train attendees on using Cassavabase for data loading, visualization, analysis and breeding management through hands-on examples. The audience includes trial managers, data curators/analysts, and scientists/PhD students. Details are provided on checking accounts, tablets, and websites for training. The agenda covers searching, downloading accessions, list management, barcoding, fieldbook use, phenotype analysis including selection indices and genomic selection, and solving issues.
Sql cheat sheet
This document provides a cheat sheet for using SQL commands to interact with PostgreSQL databases, schemas, tables, and data. It lists commands for connecting to databases (\c) and schemas (\dn), viewing table details (\d), and sending output to a file (\o). It also summarizes commands for data manipulation like INSERT, UPDATE, DELETE, and transactions using BEGIN and COMMIT. Finally, it outlines common SQL queries using SELECT, WHERE, ORDER BY, LIMIT, JOIN and other clauses.
Cassavabase SolGS poster PAG 2016
solGS is a web-based tool that addresses challenges in genomic selection including data management, analysis, and sharing results. It stores phenotype and genotype data in a database and provides an intuitive interface for statistical modeling, visualization, and estimating genomic breeding values. Breeders can build prediction models from training populations, validate models, and estimate genomic estimated breeding values for selection candidates to select best individuals. The open-source code can be adapted to any breeding program.
3a Cassavabase worksop: manage breeding-program ands locations
This tutorial teaches how to manage breeding programs and locations in CASSAVABASE by allowing the user to create new breeding programs and locations from the "Manage" menu. It covers setting up breeding programs under the "Manage breeding programs" section and setting up locations under the "Manage locations" section to organize data.
3b Cassavabase workshop: manage accessions
This document provides a tutorial on how to manage accessions in CASSAVABASE, including searching for accessions, viewing accession detail pages, editing pedigrees, finding related trials and populations, adding pedigrees for multiple accessions, and using the pedigree feature to find parents and progenies of accessions.
3c Cassavabase workshop: manage-crosses
This document provides instructions for managing crosses in a database, including creating and editing populations to define parents and siblings, creating new crosses, uploading data to new crosses, and adding progenies to existing crosses.
3d Cassavabase workshop: manage field-trial
This document provides instructions for managing field trials in Cassavabase, including:
1) Exporting and importing existing trial files
2) Creating new trials using accession lists
3) Accessing and editing information for existing trials, including the field map, design, accessions, plots, and phenotypic traits
4) Uploading and downloading phenotypic trait data using Field Book
3e Cassavabase workshop: manage genotyping-trials
This document provides instructions for managing genotyping trials, including creating a genotyping experiment, generating a submission spreadsheet for the Cornell sequencing facility, and adding a trial page linking to the genotyping trial submission. It outlines the process for setting up and submitting samples for genotyping through the Cornell sequencing facility.
3f Cassavabase workshop: manage field-book
This document provides instructions for managing the Fieldbook app, including creating field layout files, uploading data from Fieldbook to Cassavabase, and using the trial page upload/download feature to record phenotypic traits in Fieldbook.
3g Cassavabase workshop: manage phenotyping
This document provides instructions for uploading phenotypic data from trial experiments to Cassavabase. It covers how to upload phenotypic data to existing trials using a spreadsheet format. The tutorial explains the process of managing phenotypes by uploading trial data to trials within the Cassavabase system.
3h Cassavabase workshop: manage barcode
Create barcodes for field phenotyping experiments. Barcodes can be generated and managed for tracking samples in phenotyping studies. This tutorial provides instructions on how to create and manage barcodes.
4 Cassavabase workshop: analyze menu
This tutorial document provides information on analyzing genome sequence data using tools available through the Cassavabase workshop's "Analyze" menu, including visualizing genome sequence data from cassava in JBrowse, performing BLAST searches, and using the SGN VIGS tool to design virus-induced gene silencing constructs for cassava. It lists JBrowse, BLAST, and the SGN VIGS tool as the main sequence analysis tools covered, and provides links to their websites and instructions for using them to visualize, search, and design constructs for cassava gene silencing experiments.
More from solgenomics (17)
3a Cassavabase worksop: manage breeding-program ands locations
3a Cassavabase worksop: manage breeding-program ands locations
Recently uploaded
快速办理(UAM毕业证书)马德里自治大学毕业证学位证一模一样
学校原件一模一样【微信：741003700 】《(UAM毕业证书)马德里自治大学毕业证学位证》【微信：741003700 】学位证，留信认证（真实可查，永久存档）原件一模一样纸张工艺/offer、雅思、外壳等材料/诚信可靠,可直接看成品样本，帮您解决无法毕业带来的各种难题！外壳，原版制作，诚信可靠，可直接看成品样本。行业标杆！精益求精，诚心合作，真诚制作！多年品质 ,按需精细制作，24小时接单,全套进口原装设备。十五年致力于帮助留学生解决难题，包您满意。
本公司拥有海外各大学样板无数，能完美还原。
1:1完美还原海外各大学毕业材料上的工艺：水印，阴影底纹，钢印LOGO烫金烫银，LOGO烫金烫银复合重叠。文字图案浮雕、激光镭射、紫外荧光、温感、复印防伪等防伪工艺。材料咨询办理、认证咨询办理请加学历顾问Q/微741003700
【主营项目】
一.毕业证【q微741003700】成绩单、使馆认证、教育部认证、雅思托福成绩单、学生卡等！
二.真实使馆公证(即留学回国人员证明,不成功不收费)
三.真实教育部学历学位认证（教育部存档！教育部留服网站永久可查）
四.办理各国各大学文凭(一对一专业服务,可全程监控跟踪进度)
如果您处于以下几种情况：
◇在校期间，因各种原因未能顺利毕业……拿不到官方毕业证【q/微741003700】
◇面对父母的压力，希望尽快拿到；
◇不清楚认证流程以及材料该如何准备；
◇回国时间很长，忘记办理；
◇回国马上就要找工作，办给用人单位看；
◇企事业单位必须要求办理的
◇需要报考公务员、购买免税车、落转户口
◇申请留学生创业基金
留信网认证的作用:
1:该专业认证可证明留学生真实身份
2:同时对留学生所学专业登记给予评定
3:国家专业人才认证中心颁发入库证书
4:这个认证书并且可以归档倒地方
5:凡事获得留信网入网的信息将会逐步更新到个人身份内，将在公安局网内查询个人身份证信息后，同步读取人才网入库信息
6:个人职称评审加20分
7:个人信誉贷款加10分
8:在国家人才网主办的国家网络招聘大会中纳入资料，供国家高端企业选择人才
Farming systems analysis: what have we learnt?.pptx
Presentation given at the official farewell of Prof Ken Gillet at Wageningen on 13 June 2024
Pests of Storage_Identification_Dr.UPR.pdf
InIndia-post-harvestlosses-unscientificstorage,insects,rodents,micro-organismsetc.,accountforabout10percentoftotalfoodgrains
Graininfestation
Directdamage
Indirectly
•theexuviae,skin,deadinsects
•theirexcretawhichmakefoodunfitforhumanconsumption
About600speciesofinsectshavebeenassociatedwithstoredgrainproducts
100speciesofinsectpestsofstoredproductscauseeconomiclosses
Summary Of transcription and Translation.pdf
Hello Everyone Here We are Sharing You with The process of protien Synthesis in very short points you will be Able to understand It Very well
Sustainable Land Management - Climate Smart Agriculture
Sustainable Land Management - Climate Smart AgricultureInternational Food Policy Research Institute- South Asia Office
PPT on Sustainable Land Management presented at the three-day 'Training and Validation Workshop on Modules of Climate Smart Agriculture (CSA) Technologies in South Asia' workshop on April 22, 2024.
HUMAN EYE By-R.M Class 10 phy best digital notes.pdf
Class 10 human eye notes physics
Handwritten best quality
Injection: Risks and challenges - Injection of CO2 into geological rock forma...
Presentation by Dr. Florian Krob, Workshop "Risks of CO2 storage - How can they be addressed and reduced?", 22.4.2024
Holsinger, Bruce W. - Music, body and desire in medieval culture [2001].pdf
Music and Medieval History
Methods of grain storage Structures in India.pdf
•Post-harvestlossesaccountforabout10%oftotalfoodgrainsduetounscientificstorage,insects,rodents,micro-organismsetc.,
•Totalfoodgrainproductioninindiais311milliontonnesandstorageis145mt.InIndia,annualstoragelosseshavebeenestimated14mtworthofRs.7,000croreinwhichinsectsaloneaccountfornearlyRs.1,300crores.
•InIndiaoutofthetotalproduction,about30%ismarketablesurplus
•Remaining70%isretainedandstoredbyfarmersforconsumption,seed,feed.Hence,growerneedstoragefacilitytoholdaportionofproducetosellwhenthemarketingpriceisfavourable
•TradersandCo-operativesatmarketcentresneedstoragestructurestoholdgrainswhenthetransportfacilityisinadequate
Mechanisms and Applications of Antiviral Neutralizing Antibodies - Creative B...
Neutralizing antibodies, pivotal in immune defense, specifically bind and inhibit viral pathogens, thereby playing a crucial role in protecting against and mitigating infectious diseases. In this slide, we will introduce what antibodies and neutralizing antibodies are, the production and regulation of neutralizing antibodies, their mechanisms of action, classification and applications, as well as the challenges they face.
Signatures of wave erosion in Titan’s coasts
The shorelines of Titan’s hydrocarbon seas trace flooded erosional landforms such as river valleys; however, it isunclear whether coastal erosion has subsequently altered these shorelines. Spacecraft observations and theo-retical models suggest that wind may cause waves to form on Titan’s seas, potentially driving coastal erosion,but the observational evidence of waves is indirect, and the processes affecting shoreline evolution on Titanremain unknown. No widely accepted framework exists for using shoreline morphology to quantitatively dis-cern coastal erosion mechanisms, even on Earth, where the dominant mechanisms are known. We combinelandscape evolution models with measurements of shoreline shape on Earth to characterize how differentcoastal erosion mechanisms affect shoreline morphology. Applying this framework to Titan, we find that theshorelines of Titan’s seas are most consistent with flooded landscapes that subsequently have been eroded bywaves, rather than a uniform erosional process or no coastal erosion, particularly if wave growth saturates atfetch lengths of tens of kilometers.
TOPIC OF DISCUSSION: CENTRIFUGATION SLIDESHARE.pptx
Centrifugation is a powerful technique used in laboratories to separate components of a heterogeneous mixture based on their density. This process utilizes centrifugal force to rapidly spin samples, causing denser particles to migrate outward more quickly than lighter ones. As a result, distinct layers form within the sample tube, allowing for easy isolation and purification of target substances.
Evidence of Jet Activity from the Secondary Black Hole in the OJ 287 Binary S...
Wereport the study of a huge optical intraday flare on 2021 November 12 at 2 a.m. UT in the blazar OJ287. In the binary black hole model, it is associated with an impact of the secondary black hole on the accretion disk of the primary. Our multifrequency observing campaign was set up to search for such a signature of the impact based on a prediction made 8 yr earlier. The first I-band results of the flare have already been reported by Kishore et al. (2024). Here we combine these data with our monitoring in the R-band. There is a big change in the R–I spectral index by 1.0 ±0.1 between the normal background and the flare, suggesting a new component of radiation. The polarization variation during the rise of the flare suggests the same. The limits on the source size place it most reasonably in the jet of the secondary BH. We then ask why we have not seen this phenomenon before. We show that OJ287 was never before observed with sufficient sensitivity on the night when the flare should have happened according to the binary model. We also study the probability that this flare is just an oversized example of intraday variability using the Krakow data set of intense monitoring between 2015 and 2023. We find that the occurrence of a flare of this size and rapidity is unlikely. In machine-readable Tables 1 and 2, we give the full orbit-linked historical light curve of OJ287 as well as the dense monitoring sample of Krakow.
SDSS1335+0728: The awakening of a ∼ 106M⊙ black hole⋆
Context. The early-type galaxy SDSS J133519.91+072807.4 (hereafter SDSS1335+0728), which had exhibited no prior optical variations during the preceding two decades, began showing significant nuclear variability in the Zwicky Transient Facility (ZTF) alert stream from December 2019 (as ZTF19acnskyy). This variability behaviour, coupled with the host-galaxy properties, suggests that SDSS1335+0728 hosts a ∼ 106M⊙ black hole (BH) that is currently in the process of ‘turning on’. Aims. We present a multi-wavelength photometric analysis and spectroscopic follow-up performed with the aim of better understanding the origin of the nuclear variations detected in SDSS1335+0728. Methods. We used archival photometry (from WISE, 2MASS, SDSS, GALEX, eROSITA) and spectroscopic data (from SDSS and LAMOST) to study the state of SDSS1335+0728 prior to December 2019, and new observations from Swift, SOAR/Goodman, VLT/X-shooter, and Keck/LRIS taken after its turn-on to characterise its current state. We analysed the variability of SDSS1335+0728 in the X-ray/UV/optical/mid-infrared range, modelled its spectral energy distribution prior to and after December 2019, and studied the evolution of its UV/optical spectra. Results. From our multi-wavelength photometric analysis, we find that: (a) since 2021, the UV flux (from Swift/UVOT observations) is four times brighter than the flux reported by GALEX in 2004; (b) since June 2022, the mid-infrared flux has risen more than two times, and the W1−W2 WISE colour has become redder; and (c) since February 2024, the source has begun showing X-ray emission. From our spectroscopic follow-up, we see that (i) the narrow emission line ratios are now consistent with a more energetic ionising continuum; (ii) broad emission lines are not detected; and (iii) the [OIII] line increased its flux ∼ 3.6 years after the first ZTF alert, which implies a relatively compact narrow-line-emitting region. Conclusions. We conclude that the variations observed in SDSS1335+0728 could be either explained by a ∼ 106M⊙ AGN that is just turning on or by an exotic tidal disruption event (TDE). If the former is true, SDSS1335+0728 is one of the strongest cases of an AGNobserved in the process of activating. If the latter were found to be the case, it would correspond to the longest and faintest TDE ever observed (or another class of still unknown nuclear transient). Future observations of SDSS1335+0728 are crucial to further understand its behaviour. Key words. galaxies: active– accretion, accretion discs– galaxies: individual: SDSS J133519.91+072807.4
The cost of acquiring information by natural selection
This is a short talk that I gave at the Banff International Research Station workshop on Modeling and Theory in Population Biology. The idea is to try to understand how the burden of natural selection relates to the amount of information that selection puts into the genome.
It's based on the first part of this research paper:
The cost of information acquisition by natural selection
Ryan Seamus McGee, Olivia Kosterlitz, Artem Kaznatcheev, Benjamin Kerr, Carl T. Bergstrom
bioRxiv 2022.07.02.498577; doi: https://doi.org/10.1101/2022.07.02.498577
Sexuality - Issues, Attitude and Behaviour - Applied Social Psychology - Psyc...
A proprietary approach developed by bringing together the best of learning theories from Psychology, design principles from the world of visualization, and pedagogical methods from over a decade of training experience, that enables you to: Learn better, faster!
Post translation modification by Suyash Garg
overview of PTM helps to the students who wants to clear their basics about it.
Recently uploaded (20)
Juaristi, Jon. - El canon espanol. El legado de la cultura española a la civi...
Juaristi, Jon. - El canon espanol. El legado de la cultura española a la civi...
Farming systems analysis: what have we learnt?.pptx
Farming systems analysis: what have we learnt?.pptx
Sustainable Land Management - Climate Smart Agriculture
Sustainable Land Management - Climate Smart Agriculture
HUMAN EYE By-R.M Class 10 phy best digital notes.pdf
HUMAN EYE By-R.M Class 10 phy best digital notes.pdf
Injection: Risks and challenges - Injection of CO2 into geological rock forma...
Injection: Risks and challenges - Injection of CO2 into geological rock forma...
Holsinger, Bruce W. - Music, body and desire in medieval culture [2001].pdf
Holsinger, Bruce W. - Music, body and desire in medieval culture [2001].pdf
Mechanisms and Applications of Antiviral Neutralizing Antibodies - Creative B...
Mechanisms and Applications of Antiviral Neutralizing Antibodies - Creative B...
TOPIC OF DISCUSSION: CENTRIFUGATION SLIDESHARE.pptx
TOPIC OF DISCUSSION: CENTRIFUGATION SLIDESHARE.pptx
Evidence of Jet Activity from the Secondary Black Hole in the OJ 287 Binary S...
Evidence of Jet Activity from the Secondary Black Hole in the OJ 287 Binary S...
SDSS1335+0728: The awakening of a ∼ 106M⊙ black hole⋆
SDSS1335+0728: The awakening of a ∼ 106M⊙ black hole⋆
The cost of acquiring information by natural selection
The cost of acquiring information by natural selection
Sexuality - Issues, Attitude and Behaviour - Applied Social Psychology - Psyc...
Sexuality - Issues, Attitude and Behaviour - Applied Social Psychology - Psyc...