Package: ssdGSA 0.1.1
ssdGSA: Single Sample Directional Gene Set Analysis
A method that inherits the standard gene set variation analysis (GSVA) method and also provides the option to use summary statistics from any analysis (disease vs healthy, lesional side vs nonlesional side, etc..) input to define the direction of gene sets used for directional gene set score calculation for a given disease. Note to use this package, GSVA(>= 1.52.1) is needed to pre-installed. Hanzelmann, S., Castelo, R., and Guinney, J. (2013) <doi:10.1186/1471-2105-14-7>.
Authors:
ssdGSA_0.1.1.tar.gz
ssdGSA_0.1.1.tar.gz(r-4.5-noble)ssdGSA_0.1.1.tar.gz(r-4.4-noble)
ssdGSA_0.1.1.tgz(r-4.4-emscripten)ssdGSA_0.1.1.tgz(r-4.3-emscripten)
ssdGSA.pdf |ssdGSA.html✨
ssdGSA/json (API)
# Install 'ssdGSA' in R: |
install.packages('ssdGSA', repos = c('https://cran.r-universe.dev', 'https://cloud.r-project.org')) |
- data_matrix - This is data to be included in package
- data_matrix_entrezID - This is data to be included in package
- direction_matrix - This is data to be included in package
- gene_sets - This is data to be included in package
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 1 months agofrom:e8fd36825c. Checks:OK: 2. Indexed: no.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Aug 27 2024 |
R-4.5-linux | OK | Aug 27 2024 |
Exports:ssdGSAssdGSA_individualtransform_ensembl_2_entrez
Dependencies:abindannotateAnnotationDbiapeaplotaskpassbeachmatBHBiobaseBiocFileCacheBiocGenericsBiocParallelBiocSingularBiostringsbitbit64blobcachemcliclusterProfilercodetoolscolorspacecowplotcpp11crayoncurldata.tableDBIdbplyrDelayedArrayDelayedMatrixStatsdigestDOSEdplyrenrichplotfansifarverfastmapfastmatchfgseafilelockformatRfsfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicRangesggforceggfunggnewscaleggplot2ggplotifyggraphggrepelggtreeglueGO.dbGOSemSimgraphgraphlayoutsgridExtragridGraphicsGSEABasegsonGSVAgtableHDF5ArrayhttrigraphIRangesirlbaisobandjsonliteKEGGRESTlabelinglambda.rlatticelazyevallifecyclemagickmagrittrMASSMatrixMatrixGenericsmatrixStatsmemoisemgcvmimemunsellnlmeopensslorg.Hs.eg.dbpatchworkpillarpkgconfigplogrplyrpngpolyclippurrrqvalueR.methodsS3R.ooR.utilsR6RColorBrewerRcppRcppArmadilloRcppEigenreshape2rhdf5rhdf5filtersRhdf5librjsonrlangRSQLitersvdS4ArraysS4VectorsScaledMatrixscalesscatterpieshadowtextSingleCellExperimentsnowSparseArraysparseMatrixStatsSpatialExperimentstringistringrSummarizedExperimentsyssystemfontstibbletidygraphtidyrtidyselecttidytreetreeiotweenrUCSC.utilsutf8vctrsviridisviridisLitewithrXMLxtableXVectoryulab.utilszlibbioc