Package: SiPSiC 1.12.0

Daniel Davis

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:Daniel Davis [aut, cre], Yotam Drier [aut]

SiPSiC_1.12.0.tar.gz
SiPSiC_1.12.0.zip(r-4.7)SiPSiC_1.12.0.zip(r-4.6)SiPSiC_1.12.0.zip(r-4.5)
SiPSiC_1.12.0.tgz(r-4.6-any)SiPSiC_1.12.0.tgz(r-4.5-any)
SiPSiC_1.12.0.tar.gz(r-4.7-any)SiPSiC_1.12.0.tar.gz(r-4.6-any)
SiPSiC_1.12.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
SiPSiC/json (API)
NEWS

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

Bug tracker:https://github.com/danieldavis12/sipsic/issues

On BioConductor:SiPSiC-1.13.0(bioc 3.24)SiPSiC-1.12.0(bioc 3.23)

softwaredifferentialexpressiongenesetenrichmentbiomedicalinformaticscellbiologytranscriptomicsrnaseqsinglecelltranscriptionsequencingimmunooncologydataimport

5.38 score 8 stars 1 packages 10 scripts 248 downloads 1 exports 18 dependencies

Last updated from:714c03d27f (on RELEASE_3_23). Checks:1 NOTE, 9 OK. Indexed: no.

TargetResultTimeFilesSyslog
bioc-checksNOTE167
linux-devel-x86_64OK249
source / vignettesOK199
linux-release-x86_64OK243
macos-release-arm64OK149
macos-oldrel-arm64OK163
windows-develOK184
windows-releaseOK166
windows-oldrelOK185
wasm-releaseOK97

Exports:getPathwayScores

Dependencies:abindBiobaseBiocGenericsDelayedArraygenericsGenomicRangesIRangeslatticeMatrixMatrixGenericsmatrixStatsS4ArraysS4VectorsSeqinfoSingleCellExperimentSparseArraySummarizedExperimentXVector

SiPSiC - Infer Biological Pathway Activity from Single-Cell RNA-Seq Data

Rendered fromSiPSiC.Rmdusingknitr::rmarkdownon Jun 03 2026.

Last update: 2023-12-11
Started: 2023-01-09