Package: Grouphmap 1.0.0

Grouphmap: 'Grouphmap' is an Automated One-Step Common Analysis of Batch Expression Profile

The 'Grouphmap' was implemented in R, an open-source programming environment, and was released under the provided website. The difference analysis is based on the 'limma' package, which can cover gene and protein expression profiles (Reference: Matthew E Ritchie , Belinda Phipson , Di Wu , Yifang Hu , Charity W Law , Wei Shi , Gordon K Smyth (2015) <doi:10.1093/nar/gkv007>). The GO enrichment analysis is based on the 'clusterProfiler' package and supports three common species: human, mouse, and yeast (Reference: Guangchuang Yu, Li-Gen Wang, Yanyan Han, Qing-Yu He (2012) <doi:10.1089/omi.2011.0118>). The results of batch difference analysis and enrichment analysis are output in separate folders for easy viewing and further visualization of the results during the process. The results returned a heatmap in R and exported to 3 folders named DEG, go, and merge.

Authors:Yuchen Sun [aut, cre]

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Grouphmap.pdf |Grouphmap.html
Grouphmap/json (API)

# Install 'Grouphmap' in R:
install.packages('Grouphmap', repos = c('https://syc2436.r-universe.dev', 'https://cloud.r-project.org'))

Peer review:

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

1.00 score 99 downloads 1 exports 118 dependencies

Last updated 1 years agofrom:d7842c6f64. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKOct 25 2024
R-4.5-winOKOct 25 2024
R-4.5-linuxOKOct 25 2024
R-4.4-winOKOct 25 2024
R-4.4-macOKOct 25 2024
R-4.3-winOKOct 25 2024
R-4.3-macOKOct 25 2024

Exports:ghmap

Dependencies:AnnotationDbiapeaplotaskpassBHBiobaseBiocGenericsBiocParallelBiostringsbitbit64blobcachemcliclusterProfilercodetoolscolorspacecowplotcpp11crayoncurldata.tableDBIdigestDOSEdplyrenrichplotfansifarverfastmapfastmatchfgseaformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataggforceggfunggnewscaleggplot2ggplotifyggrepelggtangleggtreeglueGO.dbGOSemSimgridGraphicsgsongtablehttrigraphIRangesisobandjsonliteKEGGRESTlabelinglambda.rlatticelazyevallifecyclelimmamagrittrMASSMatrixmemoisemgcvmimemunsellnlmeopensslorg.Mm.eg.dbpatchworkpheatmappillarpkgconfigplogrplyrpngpolyclippurrrqvalueR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppEigenreshape2rlangRSQLiteS4VectorsscalesscatterpiesnowstatmodstringistringrsyssystemfontstibbletidyrtidyselecttidytreetreeiotweenrUCSC.utilsutf8vctrsviridisLitewithrXVectoryulab.utilszlibbioc