Package: RNASeqR
Type: Package
Title: RNASeqR: RNA-Seq workflow for case-control study
Version: 1.0.3
Date: 2018-8-7
Author: Kuan-Hao Chao
Maintainer: Kuan-Hao Chao <ntueeb05howard@gmail.com>
biocViews: Genetics, Infrastructure, DataImport, Sequencing, RNASeq,
        GeneExpression, GeneSetEnrichment, Alignment, QualityControl,
        DifferentialExpression, FunctionalPrediction,
        ExperimentalDesign, GO, KEGG, Visualization, Normalization,
        Pathways, Clustering, ImmunoOncology
Description: 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.
License: Artistic-2.0
Encoding: UTF-8
RoxygenNote: 6.1.0
Depends: R(>= 3.5.0), ggplot2, pathview, edgeR, methods
Imports: Rsamtools, tools, reticulate, ballgown, gridExtra, rafalib,
        FactoMineR, factoextra, corrplot, PerformanceAnalytics,
        reshape2, DESeq2, systemPipeR, systemPipeRdata,
        clusterProfiler, org.Hs.eg.db, org.Sc.sgd.db, stringr,
        pheatmap, grDevices, graphics, stats, utils, DOSE, Biostrings,
        parallel
Suggests: knitr, png, grid, RNASeqRData
VignetteBuilder: knitr
SystemRequirements: RNASeqR only support Linux and macOS. Window is not
        supported. Python2 is highly recommended. If your machine is
        Python3, make sure '2to3' command is available.
BugReports: https://github.com/HowardChao/RNASeqR/issues
URL: https://github.com/HowardChao/RNASeqR
NeedsCompilation: no
git_url: https://git.bioconductor.org/packages/RNASeqR
git_branch: RELEASE_3_8
git_last_commit: ba9f675
git_last_commit_date: 2018-12-04
Date/Publication: 2018-12-04
Packaged: 2018-12-05 03:27:31 UTC; biocbuild
Built: R 3.5.1; ; 2019-01-04 16:57:00 UTC; unix
