近年、深層学習が芸術分野へ応用され、文章生成でも大きな成果を挙げつつある。本研究ではLong-Short Term Memory(LSTM)を用いた言語モデルを中心として、俳句生成を行うシステムを構築することを目指す。言語モデルの構築に際して、トークン単位の違いや韻律の区切り方の違いが推定精度に及ぼす影響を検証した。
This document discusses the career of a software developer from 2017 to present. It details their work developing enrichment analysis for non-model organisms, meta-analysis of RNA-Seq, sensor analysis for R users, and single-cell RNA-Seq data analysis which are currently in progress. It also provides information on their background in Python, R, and Julia programming languages.
The document describes different methods for applying functions to data in R including for loops, apply functions, and the tidyverse. It shows examples of using dplyr verbs like select, filter, group_by, and mutate on the iris dataset. It also demonstrates nesting and mapping models using the iris data.
This document discusses plotting data points in R with different colors and symbols. It shows code to plot numbers 1 through 8 with each point in a different color from the default R color palette, the RColorBrewer palette, and the ggplot2 palette. It also shows how to set the global option stringsAsFactors to FALSE.
This document discusses two topics: 1) It credits the Togo picture gallery by DBCLS as being licensed under a Creative Commons 2.1 license. 2) It presents a mathematical formula for minimizing the sum of squared distances between data matrices Xk and their low-rank approximations (W + Vk)Hk, where W, Hk, and Vk are parameter matrices to be estimated.
The document presents a mathematical model for dimensionality reduction. It defines vectors X1, X2, X3 to represent high-dimensional data. Matrices U and V are used to project the data into a lower-dimensional space. The model finds the optimal matrices U and V to minimize the difference between the original and projected data.
This document contains instructions for installing and using the scTGIF R package for analyzing single-cell transcriptomic data, as well as a reference to the 2018 paper "Tabula Muris" by Stephen R. Quake. It includes the licensing information for a Togo picture gallery from DBCLS.
This document describes a method for analyzing cell-cell interactions within single-cell RNA-seq data using tensor decomposition. It references several papers on tensor decomposition and single-cell analysis methods. The document also includes code to load a sample single-cell dataset, perform tensor decomposition on it, and generate reports of the results.
The document describes performing dimensionality reduction, cell-cell interaction analysis, and reporting on single-cell RNA-seq data from a study of germline cells in male samples. It loads the gene expression, dimensionality reduced data, and cell type labels into a SingleCellExperiment object. Cell-cell interaction ranks are calculated and used for decomposition. A report is generated on the cell-cell interactions within each cell type at a threshold of 80%.
Exploring the phenotypic consequences of tissue specific gene expression vari...弘毅 露崎
This document discusses RNA processing in mitochondria. Mitochondrial RNA transcripts are processed to form mature RNAs through cleavage and joining of sequences. The processing involves removal of sequences from mitochondrial rRNA and mtRNA precursors to form the mature 3' and 5' ends through cleavage and ligation.
This document discusses the key factors needed to induce pluripotency in differentiated cells: c-Myc, Oct3/4, Klf4, and Sox2. It also mentions DeepGOscnn, which is likely a method or tool for studying the induced pluripotent stem cell reprogramming process.
The document is a Julia script that posts random beer-related tweets. It contains an if statement that checks a condition and runs beer.sh if true. It initializes the Twitter API with credentials. In a for loop, it generates random sentences with 1 to 10 beer emojis and random spacing, and posts each to Twitter. It sleeps for 1 second between posts.
Identification of associations between genotypes and longitudinal phenotypes ...弘毅 露崎
The document discusses the benefits of exercise for mental health. Regular physical activity can help reduce anxiety and depression and improve mood and cognitive functioning. Exercise causes chemical changes in the brain that may help protect against mental illness and improve symptoms for those who already suffer from conditions like depression and anxiety.
A novel method for discovering local spatial clusters of genomic regions with...弘毅 露崎
The document discusses the benefits of exercise for mental health. Regular physical activity can help reduce anxiety and depression and improve mood and cognitive functioning. Exercise causes chemical changes in the brain that may help protect against mental illness and improve symptoms.
This document contains R code for exploring various R functions and packages. It downloads an R script from GitHub, loads packages from CRAN and Bioconductor, explores basic functions like plotting, looping, and object manipulation, and creates an R package skeleton. The code covers many fundamental and advanced R topics.
35. インストール (2/3)
# RNA-Skimのインストール!
wget https://github.com/zzj/RNASkim/archive/master.zip!
unzip master.zip!
cd RNASkim-master!
export CXX=/PATH/TO/YOUR/HOME/GCC/bin/g++!
!
./prepare.sh!
cd src!
make all!
make all # なぜか二回やらないとコンパイルされない
41. 参考
# 発現量の指標!
・Transcript assembly and quantification by RNA-Seq reveals unannotated transcripts and isoform
switching during cell differentiaion!
・RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome!
・RNA-Seq gene expression estimation with read mapping uncertainty!
・Sailfish: Rapid Alignment-free Quantification of Osoforms from RNA-Seq Reads!
・Measurement of mRNA abundance using RNA-seq data: RPKM measure is inconsistent among samples
!
# EMアルゴリズム!
・潜在変数モデルと学習法に関して!
・不完全データの統計解析!
・RでEMアルゴリズムによる混合ガウスモデル最尤推定!
・パターン認識と機械学習 第9章 「混合モデルとEM」!
・EM algorithm@Slideshare
42. 参考
# フラグメント割当て問題!
・What’s the FPKM?!
・「RNA-Seqの数理 - 生成モデルによる発現量推定」シリーズ!
・(Rで)塩基配列解析!
・トランスクリプトームデータ解析戦略2014!
・CSHL Keynote; Dr. Lior Pachter, UC Berkeley (youtube)!
・Gene and transcript discovery and expression analysis with RNA-Seq!
・eXpress: Streaming read deconvolution and abundance estimation applied to RNA-Seq!
!
# Bloom filter!
・ブルームフィルタ(Wikipedia)!
・Bloom filterの説明!
!
# Rolling Hash!
・ラビン-カープ文字列検索アルゴリズム