Package: mpra 1.27.0
Leslie Myint
mpra: Analyze massively parallel reporter assays
Tools for data management, count preprocessing, and differential analysis in massively parallel report assays (MPRA).
Authors:
mpra_1.27.0.tar.gz
mpra_1.27.0.zip(r-4.5)mpra_1.27.0.zip(r-4.4)mpra_1.27.0.zip(r-4.3)
mpra_1.27.0.tgz(r-4.4-any)mpra_1.27.0.tgz(r-4.3-any)
mpra_1.27.0.tar.gz(r-4.5-noble)mpra_1.27.0.tar.gz(r-4.4-noble)
mpra_1.27.0.tgz(r-4.4-emscripten)mpra_1.27.0.tgz(r-4.3-emscripten)
mpra.pdf |mpra.html✨
mpra/json (API)
NEWS
| # Install 'mpra' in R: |
| install.packages('mpra', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/hansenlab/mpra/issues
- mpraSetAggExample - Example data for the mpra package.
- mpraSetAllelicExample - Example data for the mpra package.
- mpraSetExample - Example data for the mpra package.
On BioConductor:mpra-1.27.0(bioc 3.20)mpra-1.26.0(bioc 3.19)
Last updated 2 months agofrom:70b460fe7b
Exports:compute_logratioget_precision_weightsgetBarcodegetDNAgetEidgetEseqgetRNAmpralmMPRASetnormalize_countsshow
Dependencies:abindaskpassBiobaseBiocGenericsclicolorspacecrayoncurlDelayedArrayfarverGenomeInfoDbGenomeInfoDbDataGenomicRangesgluehttrIRangesjsonlitelabelinglatticelifecyclelimmaMatrixMatrixGenericsmatrixStatsmimemunsellopensslR6RColorBrewerrlangS4ArraysS4VectorsscalesSparseArraystatmodSummarizedExperimentsysUCSC.utilsviridisLiteXVectorzlibbioc
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| Analyze massively parallel reporter assays | mpra-package mpra |
| Compute activity measure (log-ratio) for each element. | compute_logratio |
| Get precision weights from the copy number-variance relationship. | get_precision_weights |
| Linear models for differential analysis of MPRA data | mpralm |
| Class '"MPRASet"' | getBarcode getDNA getEid getEseq getRNA MPRASet MPRASet-class show,MPRASet-method |
| Example data for the mpra package. | mpraSetAggExample mpraSetAllelicExample mpraSetExample |
| Total count normalization of DNA and RNA counts | normalize_counts |
