Package: BEAT 1.51.0
Kemal Akman
BEAT: BEAT - BS-Seq Epimutation Analysis Toolkit
Model-based analysis of single-cell methylation data
Authors:
BEAT_1.51.0.tar.gz
BEAT_1.51.0.zip(r-4.7)BEAT_1.51.0.zip(r-4.6)BEAT_1.51.0.zip(r-4.5)
BEAT_1.51.0.tgz(r-4.6-any)BEAT_1.51.0.tgz(r-4.5-any)
BEAT_1.51.0.tar.gz(r-4.7-any)BEAT_1.51.0.tar.gz(r-4.6-any)
BEAT_1.51.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
BEAT/json (API)
| # Install 'BEAT' in R: |
| install.packages('BEAT', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
- positions - Sample dataset of CpG positions for a single cell BS-seq sample
- positions.reference - Sample dataset of CpG positions for a reference BS-Seq sample
On BioConductor:BEAT-1.51.0(bioc 3.24)BEAT-1.50.0(bioc 3.23)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
immunooncologygeneticsmethylseqsoftwarednamethylationepigenetics
Last updated from:6c3988d029. Checks:1 ERROR, 7 NOTE, 2 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | ERROR | 169 | ||
| linux-devel-x86_64 | NOTE | 437 | ||
| source / vignettes | OK | 331 | ||
| linux-release-x86_64 | NOTE | 391 | ||
| macos-release-arm64 | NOTE | 209 | ||
| macos-oldrel-arm64 | NOTE | 269 | ||
| windows-devel | NOTE | 358 | ||
| windows-release | NOTE | 404 | ||
| windows-oldrel | NOTE | 378 | ||
| wasm-release | OK | 171 |
Exports:epimutation_callsgenerate_resultsmakeParamspositions_to_regions
Dependencies:abindaskpassBHBiobaseBiocBaseUtilsBiocGenericsBiocIOBiocParallelBiostringsbitopsBSgenomecigarillocodetoolscpp11crayoncurlDelayedArraydeldirformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicRangeshttrhwriterinterpIRangesjpegjsonlitelambda.rlatticelatticeExtraMASSMatrixMatrixGenericsmatrixStatsmimeopensslpngpwalignR6RColorBrewerRcppRcppEigenRCurlrestfulrRhtslibrjsonRsamtoolsrtracklayerS4ArraysS4VectorsSeqinfoShortReadsnowSparseArraySummarizedExperimentsysXMLXVectoryaml
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| BEAT - BS-Seq Epimutation Analysis Toolkit | BEAT-package BEAT |
| Returns epimutation rates and sites. | epimutation_calls |
| Computes model methylation states for genomic region counts of a list of samples. | generate_results |
| Creates a parameter object of arguments to be used with other BEAT functions. | makeParams |
| Sample dataset of CpG positions for a single cell BS-seq sample | positions |
| Converts methylation counts for single genomic positions to counts for genomic regions | positions_to_regions |
| Sample dataset of CpG positions for a reference BS-Seq sample | positions.reference |