Advertisement
Check these out next
Introduction to YamBase
May. 5, 2016•0 likes•728 views
1 likes
Be the first to like this
Show More
views
Total views
0
On Slideshare
0
From embeds
0
Number of embeds
0
Download to read offline
Report
Presentations & Public Speaking
Introduction to YamBase database.
solgenomicsFollow
Advertisement
Advertisement
Advertisement
Introduction to YamBase
- YAMBASE Alex Ogbonna YamBase Workshop Cotonou March 2016 aco46@cornell.edu
- YamBase
- YamBase
- YamBase Outline 9:00 YamBase overview 9:30 Accounts and Logins 10:00 Searching YamBase 10:30 Working with list 11:00 The search Wizard 11:30 Introduction to Managing data using YamBase 12:00 Adding accessions, images and pedigree 12:30 Lunch 1:00 Adding Crosses 1:30 Trial creation and upload 2:00 Generating files for the Android field book 2:30 Upload phenotypic data from the fieldbook 3:00 Uploading field trial coordinates (field map) 3:30 Uploading historic data 4:00 session ends
- YamBase Workshop Hands-on You are expected to use your laptop and the YamBase test server We would love to learn about your processes as a way of feedback to further improve the database
- YamBase YAMBASE YamBase What is new Account request and login
- YamBase https://github.com/solgenomics https://yambase.org https://sweetpotatobase.org https://musabase.org https://cassavabase.org
- YamBase Introduction Central datastore Provide breeders with tools Globally accessible resource Comprehensive information source
- YamBase Why YamBase Data Archiving Data Accessibility Data Integration Data sharing Better data analysis Proper data curation Data integrity Good metadata information
- YamBase What you need to use YamBase
- YamBase Home page Production: https://yambase.org/ Test: https://yambase-test.sgn.cornell.edu/
- YamBase Responsive Design
- YamBase YamBase Data Structure Accessions Pedigree data Genotyping data Trait dataPlots Field data Trials
- YamBase Account Privileges Account Type Privileges none Browse, use tools “user" User database, forum “submitter" create trials, add phenotype information etc.
- YamBase Create Account
- YamBase Create Account
- YamBase Create Account After creating your account, you’ll get an email notification from which you would activate your account.
- YamBase Create Account Create a YamBase account and enter information to your profile!
- YamBase Yam Trait Ontology
- YamBase Yam Trait Ontology
- YamBase Yam Trait Ontology
- YamBase Exercise Go to Yam test site Yambase-test.sgn.cornell.edu Go to ontology browser Browser the Yam Ontology Find the term “no. of setts planted” How is it defined?
- YamBase “Search” menu & Lists Add list Combine list Make public and private Accessions and plots Trials Wizard Wizard download
- YamBase Accessions and plots
- YamBase Accessions and plots
- YamBase Search accessions
- YamBase Search accessions
- YamBase Trials search
- YamBase Trials search
- YamBase Trials search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard search
- YamBase Wizard download
- YamBase Wizard download
- YamBase Using Lists Tool
- YamBase Add New List View list content Delete list Download list Make list public
- YamBase Add New List
- YamBase Add New List
- YamBase Add New List View list content
- YamBase Add New List
- YamBase Add New List
- YamBase Add New List
- YamBase Combine list
- YamBase Make List Public Make public
- YamBase View Public List
- YamBase Make List Private Make private
- YamBase Exercise Go to wizard Select “breeding program “ on the first select box and select “IITA” Select “trials” in the second select box and select any two trials Make list of common accessions in both trials. List name should be “yourname_commonAccession” Make list of accessions that are found in both trials. List name should be “yourname_Accession” Create an accession list with name “yourname_list” Open to verify that the list type is set correctly Edit the list Set list to public Combine yourname_list and yourname_commonAccessions
- YamBase “Manage” menu Crosses Downloads Breeding program Locations Accessions
- YamBase Manage Breeding Programs
- YamBase Add Breeding Programs
- YamBase Add Breeding Programs
- YamBase Manage Locations
- YamBase Add Locations
- YamBase Add Locations
- YamBase Manage Accessions
- YamBase Add Accessions
- YamBase Accessions Batch Upload
- YamBase Accessions Batch Upload
- YamBase Accessions Batch Upload
- YamBase Pedigree Upload
- YamBase Pedigree Upload
- YamBase Pedigree Upload
- YamBase Manage Crosses
- YamBase Add Crosses
- YamBase Add Crosses
- YamBase Add Crosses
- YamBase Add Crosses
- YamBase Manage Downloads
- YamBase Manage Downloads
- YamBase Manage Downloads
- YamBase Contact us CONTACT US !
- YamBase Contact us CONTACT FORM !
- Acknowledgements Lukas Mueller Alex Ogbonna Bryan Ellerbrock Naama Menda Isaak Tecle Nick Morales Guillaume Bauchet BMGF
- THANK YOU.
Advertisement