Package: ERSSA 1.25.0
Zixuan Shao
ERSSA: Empirical RNA-seq Sample Size Analysis
The ERSSA package takes user supplied RNA-seq differential expression dataset and calculates the number of differentially expressed genes at varying biological replicate levels. This allows the user to determine, without relying on any a priori assumptions, whether sufficient differential detection has been acheived with their RNA-seq dataset.
Authors:
ERSSA_1.25.0.tar.gz
ERSSA_1.25.0.zip(r-4.5)ERSSA_1.25.0.zip(r-4.4)ERSSA_1.25.0.zip(r-4.3)
ERSSA_1.25.0.tgz(r-4.4-any)ERSSA_1.25.0.tgz(r-4.3-any)
ERSSA_1.25.0.tar.gz(r-4.5-noble)ERSSA_1.25.0.tar.gz(r-4.4-noble)
ERSSA_1.25.0.tgz(r-4.4-emscripten)ERSSA_1.25.0.tgz(r-4.3-emscripten)
ERSSA.pdf |ERSSA.html✨
ERSSA/json (API)
NEWS
| # Install 'ERSSA' in R: |
| install.packages('ERSSA', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/zshao1/erssa/issues
- combinations.partial - Example list of combinations generated by comb_gen function.
- condition_table.full - Example table of sample names and conditions
- condition_table.partial - Example table of sample names and conditions
- count_table.filtered.partial - Example count table of GTEx RNA-seq experiment, fitered by count_filter function
- count_table.full - Example count table of GTEx RNA-seq experiment
- count_table.partial - Example count table of GTEx RNA-seq experiment
- deg.partial - Example list of DE genes generated by edgeR
On BioConductor:ERSSA-1.23.0(bioc 3.20)ERSSA-1.22.0(bioc 3.19)
immunooncologygeneexpressiontranscriptiondifferentialexpressionrnaseqmultiplecomparisonqualitycontrol
Last updated 23 days agofrom:63a52f8a83. Checks:OK: 1 NOTE: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Oct 30 2024 |
| R-4.5-win | NOTE | Oct 30 2024 |
| R-4.5-linux | NOTE | Oct 30 2024 |
| R-4.4-win | NOTE | Oct 30 2024 |
| R-4.4-mac | NOTE | Oct 31 2024 |
| R-4.3-win | NOTE | Oct 30 2024 |
| R-4.3-mac | NOTE | Oct 31 2024 |
Exports:comb_gencount_filtererssaerssa_deseq2erssa_deseq2_parallelerssa_edgererssa_edger_parallelggplot2_dotplotggplot2_intersectPlotggplot2_marginPlotggplot2_TPR_FPRPlot
Dependencies:abindapeglmaskpassbbmlebdsmatrixBHBiobaseBiocGenericsBiocParallelclicodacodetoolscolorspacecpp11crayoncurlDelayedArrayDESeq2edgeRemdbookfansifarverformatRfutile.loggerfutile.optionsGenomeInfoDbGenomeInfoDbDataGenomicRangesggplot2gluegtablehttrIRangesisobandjsonlitelabelinglambda.rlatticelifecyclelimmalocfitmagrittrMASSMatrixMatrixGenericsmatrixStatsmgcvmimemunsellmvtnormnlmenumDerivopensslpillarpkgconfigplyrR6RColorBrewerRcppRcppArmadilloRcppEigenRcppNumericalrlangS4ArraysS4VectorsscalessnowSparseArraystatmodSummarizedExperimentsystibbleUCSC.utilsutf8vctrsviridisLitewithrXVectorzlibbioc
