Rendered from
coGPS.Rnwusingutils::SweavePackage: coGPS 1.57.0
Yingying Wei
coGPS: cancer outlier Gene Profile Sets
Gene Set Enrichment Analysis of P-value based statistics for outlier gene detection in dataset merged from multiple studies
Authors:
coGPS_1.57.0.tar.gz
coGPS_1.57.0.zip(r-4.7)coGPS_1.57.0.zip(r-4.6)coGPS_1.57.0.zip(r-4.5)
coGPS_1.57.0.tgz(r-4.6-any)coGPS_1.57.0.tgz(r-4.5-any)
coGPS_1.57.0.tar.gz(r-4.7-any)coGPS_1.57.0.tar.gz(r-4.6-any)
coGPS_1.57.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
coGPS/json (API)
| # Install 'coGPS' in R: |
| install.packages('coGPS', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Datasets:
- CNV_classlab_matched - Sample Data for coGPS
- CNV_exprs_matched - Sample Data for coGPS
- Exon_classlab_matched - Sample Data for coGPS
- Exon_exprs_matched - Sample Data for coGPS
- Hs.gmtl.c1 - Sample Data for coGPS
- Methy_classlab_matched - Sample Data for coGPS
- Methy_exprs_matched - Sample Data for coGPS
On BioConductor:coGPS-1.57.0(bioc 3.24)coGPS-1.56.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
microarraydifferentialexpression
Last updated from:b59311bd07. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 128 | ||
| linux-devel-x86_64 | NOTE | 143 | ||
| source / vignettes | OK | 133 | ||
| linux-release-x86_64 | NOTE | 142 | ||
| macos-release-arm64 | NOTE | 83 | ||
| macos-oldrel-arm64 | NOTE | 85 | ||
| windows-devel | NOTE | 70 | ||
| windows-release | NOTE | 74 | ||
| windows-oldrel | NOTE | 68 | ||
| wasm-release | OK | 94 |
Exports:PatientSpecificGeneListPCOPApermCOPAplotCOPAPlotTopPCOPA
Dependencies:
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Cancer Outlier Gene Profile Sets | coGPS-package coGPS |
| coGPS package internal function. | plotCOPA |
| Patient Specific outlier gene list | PatientSpecificGeneList |
| P-value based outlier gene detection | PCOPA |
| Calculate PCOPA value for permuations | permCOPA |
| Plot expression patterns of top ranked genes. | PlotTopPCOPA |
| Sample Data for coGPS | CNV_classlab_matched CNV_exprs_matched Exon_classlab_matched Exon_exprs_matched Hs.gmtl.c1 Methy_classlab_matched Methy_exprs_matched |