swMATH ID: 28858
Software Authors: Kuan-Hao Chao
Description: RNASeqR: an R package for automated two-group RNA-Seq analysis workflow. Bioconductor. This R package is designed for case-control RNA-Seq analysis (two-group). There are six steps: ”RNASeqRParam S4 Object Creation”, ”Environment Setup”, ”Quality Assessment”, ”Reads Alignment & Quantification”, ”Gene-level Differential Analyses” and ”Functional Analyses”. Each step corresponds to a function in this package. After running functions in order, a basic RNASeq analysis would be done easily.
Homepage: https://bioconductor.org/packages/release/bioc/html/RNASeqR.html
Dependencies: R
Keywords: Genomics; arXiv_q-bio.GN; Bioconductor; R; R package; RNA-Seq analysis
Related Software: TRAPLINE; bcbio-nextgen; CIPHER; Snakemake; Taverna; Galaxy; STAR; TopHat; OLego; Bioconda; pathview; KEGG; clusterProfiler; FactoMineR; corrplot; ggplot2; edgeR; DEseq; systemPipeR; HISAT; VIPER
Cited in: 0 Publications

Standard Articles

1 Publication describing the Software Year
RNASeqR: an R package for automated two-group RNA-Seq analysis workflow
Kuan-Hao Chao, Yi-Wen Hsiao, Yi-Fang Lee, Chien-Yueh Lee, Liang-Chuan Lai, Mong-Hsun Tsai, Tzu-Pin Lu, Eric Y. Chuang