Package: SiPSiC 1.5.0
SiPSiC: Calculate Pathway Scores for Each Cell in scRNA-Seq Data
Infer biological pathway activity of cells from single-cell RNA-sequencing data by calculating a pathway score for each cell (pathway genes are specified by the user). It is recommended to have the data in Transcripts-Per-Million (TPM) or Counts-Per-Million (CPM) units for best results. Scores may change when adding cells to or removing cells off the data. SiPSiC stands for Single Pathway analysis in Single Cells.
Authors:
SiPSiC_1.5.0.tar.gz
SiPSiC_1.5.0.zip(r-4.5)SiPSiC_1.5.0.zip(r-4.4)SiPSiC_1.5.0.zip(r-4.3)
SiPSiC_1.5.0.tgz(r-4.4-any)SiPSiC_1.5.0.tgz(r-4.3-any)
SiPSiC_1.5.0.tar.gz(r-4.5-noble)SiPSiC_1.5.0.tar.gz(r-4.4-noble)
SiPSiC_1.5.0.tgz(r-4.4-emscripten)SiPSiC_1.5.0.tgz(r-4.3-emscripten)
SiPSiC.pdf |SiPSiC.html✨
SiPSiC/json (API)
NEWS
# Install 'SiPSiC' in R: |
install.packages('SiPSiC', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/danieldavis12/sipsic/issues
On BioConductor:SiPSiC-1.5.0(bioc 3.20)SiPSiC-1.4.0(bioc 3.19)
Last updated 2 months agofrom:8388adc1a6
Exports:getPathwayScores
Dependencies:abindaskpassBiobaseBiocGenericscrayoncurlDelayedArrayGenomeInfoDbGenomeInfoDbDataGenomicRangeshttrIRangesjsonlitelatticeMatrixMatrixGenericsmatrixStatsmimeopensslR6S4ArraysS4VectorsSingleCellExperimentSparseArraySummarizedExperimentsysUCSC.utilsXVectorzlibbioc
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Calculate Pathway Scores for Each Cell in scRNA-Seq Data | SiPSiC-package SiPSiC |
Calculate Pathway Scores for all Cells in a scRNA-Seq Data | getPathwayScores |
Gene counts normalization | normalizeCountsForGene |