Package: BEAT 1.45.0
Kemal Akman
BEAT: BEAT - BS-Seq Epimutation Analysis Toolkit
Model-based analysis of single-cell methylation data
Authors:
BEAT_1.45.0.tar.gz
BEAT_1.45.0.zip(r-4.5)BEAT_1.45.0.zip(r-4.4)BEAT_1.45.0.zip(r-4.3)
BEAT_1.45.0.tgz(r-4.4-any)BEAT_1.45.0.tgz(r-4.3-any)
BEAT_1.45.0.tar.gz(r-4.5-noble)BEAT_1.45.0.tar.gz(r-4.4-noble)
BEAT_1.45.0.tgz(r-4.4-emscripten)BEAT_1.45.0.tgz(r-4.3-emscripten)
BEAT.pdf |BEAT.html✨
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-1.45.0(bioc 3.21)BEAT-1.44.0(bioc 3.20)
This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.
immunooncologygeneticsmethylseqsoftwarednamethylationepigenetics
Last updated 23 days agofrom:72f59ed635. Checks:OK: 1 WARNING: 6. Indexed: yes.
| Target | Result | Date |
|---|---|---|
| Doc / Vignettes | OK | Nov 18 2024 |
| R-4.5-win | WARNING | Nov 18 2024 |
| R-4.5-linux | WARNING | Nov 18 2024 |
| R-4.4-win | WARNING | Nov 18 2024 |
| R-4.4-mac | WARNING | Nov 18 2024 |
| R-4.3-win | WARNING | Nov 18 2024 |
| R-4.3-mac | WARNING | Nov 18 2024 |
Exports:epimutation_callsgenerate_resultsmakeParamspositions_to_regions
Dependencies:abindaskpassBHBiobaseBiocGenericsBiocIOBiocParallelBiostringsbitopsBSgenomecodetoolscpp11crayoncurlDelayedArraydeldirformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangeshttrhwriterinterpIRangesjpegjsonlitelambda.rlatticelatticeExtraMASSMatrixMatrixGenericsmatrixStatsmimeopensslpngpwalignR6RColorBrewerRcppRcppEigenRCurlrestfulrRhtslibrjsonRsamtoolsrtracklayerS4ArraysS4VectorsShortReadsnowSparseArraySummarizedExperimentsysUCSC.utilsXMLXVectoryamlzlibbioc
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 |