Package: rnaseqcomp 1.37.0
Mingxiang Teng
rnaseqcomp: Benchmarks for RNA-seq Quantification Pipelines
Several quantitative and visualized benchmarks for RNA-seq quantification pipelines. Two-condition quantifications for genes, transcripts, junctions or exons by each pipeline with necessary meta information should be organized into numeric matrices in order to proceed the evaluation.
Authors:
rnaseqcomp_1.37.0.tar.gz
rnaseqcomp_1.37.0.zip(r-4.5)rnaseqcomp_1.37.0.zip(r-4.4)rnaseqcomp_1.37.0.zip(r-4.3)
rnaseqcomp_1.37.0.tgz(r-4.4-any)rnaseqcomp_1.37.0.tgz(r-4.3-any)
rnaseqcomp_1.37.0.tar.gz(r-4.5-noble)rnaseqcomp_1.37.0.tar.gz(r-4.4-noble)
rnaseqcomp_1.37.0.tgz(r-4.4-emscripten)rnaseqcomp_1.37.0.tgz(r-4.3-emscripten)
rnaseqcomp.pdf |rnaseqcomp.html✨
rnaseqcomp/json (API)
NEWS
| # Install 'rnaseqcomp' in R: |
| install.packages('rnaseqcomp', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/tengmx/rnaseqcomp/issues
- simdata - Example of Quantifications on Simulation Data
On BioConductor:rnaseqcomp-1.37.0(bioc 3.21)rnaseqcomp-1.36.0(bioc 3.20)
rnaseqvisualizationqualitycontrol
Last updated 2 months agofrom:b6cc83341d. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Dec 18 2024 |
| R-4.5-win | NOTE | Dec 18 2024 |
| R-4.5-linux | NOTE | Dec 18 2024 |
| R-4.4-win | NOTE | Dec 18 2024 |
| R-4.4-mac | NOTE | Dec 18 2024 |
| R-4.3-win | NOTE | Dec 18 2024 |
| R-4.3-mac | NOTE | Dec 18 2024 |
Exports:plot2TXplotFCplotNEplotROCplotSDsignalCalibrate
Dependencies:RColorBrewer
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Sanity Check of S4 rnaseqcomp Class | check_rnaseqcomp |
| Estimate And Plot Transcript Proportion Difference | plot2TX |
| Estimate And Plot Fold Change Accuracy | plotFC |
| Estimate And Plot Express And Non-express Features | plotNE |
| Estimate And Plot Differential Expression | plotROC |
| Estimate And Plot Median Standard Deviation | plotSD |
| rnaseqcomp | rnaseqcomp-class |
| Quantification Filtering And Calibration | signalCalibrate |
| Example of Quantifications on Simulation Data | simdata |
