Package: DysPIA 1.4
DysPIA: Dysregulated Pathway Identification Analysis
It is used to identify dysregulated pathways based on a pre-ranked gene pair list. A fast algorithm is used to make the computation really fast. The data in package 'DysPIAData' is needed.
Authors:
DysPIA_1.4.tar.gz
DysPIA_1.4.zip(r-4.5)DysPIA_1.4.zip(r-4.4)DysPIA_1.4.zip(r-4.3)
DysPIA_1.4.tgz(r-4.4-x86_64)DysPIA_1.4.tgz(r-4.4-arm64)DysPIA_1.4.tgz(r-4.3-x86_64)DysPIA_1.4.tgz(r-4.3-arm64)
DysPIA_1.4.tar.gz(r-4.5-noble)DysPIA_1.4.tar.gz(r-4.4-noble)
DysPIA_1.4.tgz(r-4.4-emscripten)DysPIA_1.4.tgz(r-4.3-emscripten)
DysPIA.pdf |DysPIA.html✨
DysPIA/json (API)
| # Install 'DysPIA' in R: |
| install.packages('DysPIA', repos = c('https://lemonwang2020.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/lemonwang2020/dyspia/issues
- DysGPS_p53 - Example vector of DysGPS in p53 data.
- DyspiaRes_p53 - Example list of DysPIA result in p53 data.
- class.labels_p53 - Example vector of category labels.
- gene_expression_p53 - Example matrix of gene expression value.
- sample_background - Example list of gene pair background.
Last updated 4 years agofrom:b15711bbb9. Checks:OK: 9. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 08 2024 |
| R-4.5-win-x86_64 | OK | Oct 08 2024 |
| R-4.5-linux-x86_64 | OK | Oct 08 2024 |
| R-4.4-win-x86_64 | OK | Oct 08 2024 |
| R-4.4-mac-x86_64 | OK | Oct 08 2024 |
| R-4.4-mac-aarch64 | OK | Oct 08 2024 |
| R-4.3-win-x86_64 | OK | Oct 08 2024 |
| R-4.3-mac-x86_64 | OK | Oct 08 2024 |
| R-4.3-mac-aarch64 | OK | Oct 08 2024 |
Exports:calcDyspiaStatcalcDyspiaStatCumulativecalcDyspiaStatCumulativeBatchcalEdgeCorScore_ESEADysGPSDysPIADyspiaSigDyspiaSimpleImplsetUpBPPARAM
Dependencies:BHBiocParallelcodetoolscpp11data.tableDysPIADatafastmatchFNNformatRfutile.loggerfutile.optionslambda.rRcppsnow
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| calcDyspiaStat: Calculates DysPIA statistics | calcDyspiaStat |
| Calculates DysPIA statistic values for all the prefixes of a gene pair set | calcDyspiaStatCumulative |
| Calculates DysPIA statistic values for the gene pair sets | calcDyspiaStatCumulativeBatch |
| calEdgeCorScore_ESE | calEdgeCorScore_ESEA |
| Example vector of category labels. | class.labels_p53 |
| DysGPS: Calculates Dysregulated gene pair score (DysGPS) for each gene pair | DysGPS |
| Example vector of DysGPS in p53 data. | DysGPS_p53 |
| DysPIA: Dysregulated Pathway Identification Analysis | DysPIA |
| Example list of DysPIA result in p53 data. | DyspiaRes_p53 |
| DyspiaSig | DyspiaSig |
| DyspiaSimpleImpl | DyspiaSimpleImpl |
| Example matrix of gene expression value. | gene_expression_p53 |
| Example list of gene pair background. | sample_background |
| setUpBPPARAM | setUpBPPARAM |
