Package: deTS 1.0
deTS: Tissue-Specific Enrichment Analysis
Tissue-specific enrichment analysis to assess lists of candidate genes or RNA-Seq expression profiles. Pei G., Dai Y., Zhao Z. Jia P. (2019) deTS: Tissue-Specific Enrichment Analysis to decode tissue specificity. Bioinformatics, In submission.
Authors:
deTS_1.0.tar.gz
deTS_1.0.zip(r-4.5)deTS_1.0.zip(r-4.4)deTS_1.0.zip(r-4.3)
deTS_1.0.tgz(r-4.4-any)deTS_1.0.tgz(r-4.3-any)
deTS_1.0.tar.gz(r-4.5-noble)deTS_1.0.tar.gz(r-4.4-noble)
deTS_1.0.tgz(r-4.4-emscripten)deTS_1.0.tgz(r-4.3-emscripten)
deTS.pdf |deTS.html✨
deTS/json (API)
| # Install 'deTS' in R: |
| install.packages('deTS', repos = c('https://guangshengpei.r-universe.dev', 'https://cloud.r-project.org')) |
- ENCODE_z_score - ENCODE z-score to define tissue-specific genes
- GTEx_t_score - GTEx t-score to define tissue-specific genes
- GWAS_gene - Gene symbol query data for single sample
- GWAS_gene_multiple - Gene symbol query data for multiple samples
- correction_factor - Gene average expression level and standard deviation in GTEx data
- query_ENCODE - ENCODE raw query data
- query_GTEx - GTEx raw query data
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
Last updated 6 years agofrom:e8840a7f82. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Sep 03 2024 |
| R-4.5-win | NOTE | Sep 03 2024 |
| R-4.5-linux | NOTE | Sep 03 2024 |
| R-4.4-win | NOTE | Sep 03 2024 |
| R-4.4-mac | NOTE | Sep 03 2024 |
| R-4.3-win | NOTE | Sep 03 2024 |
| R-4.3-mac | NOTE | Sep 03 2024 |
Exports:tsea.analysistsea.analysis.multipletsea.expression.decodetsea.expression.normalizationtsea.plottsea.summary
Dependencies:clicolorspacefarvergluegtablelabelinglifecyclemunsellpheatmapR6RColorBrewerrlangscalesviridisLite
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Tissue-Specific Enrichment Analysis Tissue-Specific Enrichment Analysis | deTS-package deTS |
| Gene average expression level and standard deviation in GTEx data | correction_factor |
| ENCODE z-score to define tissue-specific genes | ENCODE_z_score |
| GTEx t-score to define tissue-specific genes | GTEx_t_score |
| Gene symbol query data for single sample | GWAS_gene |
| Gene symbol query data for multiple samples | GWAS_gene_multiple |
| ENCODE raw query data | query_ENCODE |
| GTEx raw query data | query_GTEx |
| Tissue-specific enrichment analysis for query gene list | tsea.analysis |
| Tissue-specific enrichment analysis for multi query gene lists | tsea.analysis.multiple |
| Tissue-specific enrichment analysis for RNA-Seq expression profiles | tsea.expression.decode |
| RNA-Seq expression profiles normalization | tsea.expression.normalization |
| Tissue-specific enrichment analysis result heatmap plot | tsea.plot |
| Tissue-specific enrichment analysis result summary | tsea.summary |
