Package: easylift 1.5.0
Abdullah Al Nahid
easylift: An R package to perform genomic liftover
The easylift package provides a convenient tool for genomic liftover operations between different genome assemblies. It seamlessly works with Bioconductor's GRanges objects and chain files from the UCSC Genome Browser, allowing for straightforward handling of genomic ranges across various genome versions. One noteworthy feature of easylift is its integration with the BiocFileCache package. This integration automates the management and caching of chain files necessary for liftover operations. Users no longer need to manually specify chain file paths in their function calls, reducing the complexity of the liftover process.
Authors:
easylift_1.5.0.tar.gz
easylift_1.5.0.zip(r-4.5)easylift_1.5.0.zip(r-4.4)easylift_1.5.0.zip(r-4.3)
easylift_1.5.0.tgz(r-4.4-any)easylift_1.5.0.tgz(r-4.3-any)
easylift_1.5.0.tar.gz(r-4.5-noble)easylift_1.5.0.tar.gz(r-4.4-noble)
easylift_1.5.0.tgz(r-4.4-emscripten)easylift_1.5.0.tgz(r-4.3-emscripten)
easylift.pdf |easylift.html✨
easylift/json (API)
NEWS
# Install 'easylift' in R: |
install.packages('easylift', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/nahid18/easylift/issues
On BioConductor:easylift-1.5.0(bioc 3.21)easylift-1.4.0(bioc 3.20)
softwareworkflowstepsequencingcoveragegenomeassemblydataimport
Last updated 23 days agofrom:16c9c5bed1. Checks:OK: 2 WARNING: 4 NOTE: 1. Indexed: yes.
Target | Result | Date |
---|---|---|
Doc / Vignettes | OK | Oct 31 2024 |
R-4.5-win | WARNING | Oct 31 2024 |
R-4.5-linux | WARNING | Oct 31 2024 |
R-4.4-win | WARNING | Oct 31 2024 |
R-4.4-mac | NOTE | Oct 31 2024 |
R-4.3-win | WARNING | Oct 31 2024 |
R-4.3-mac | OK | Oct 31 2024 |
Exports:easylift
Dependencies:abindaskpassBHBiobaseBiocFileCacheBiocGenericsBiocIOBiocParallelBiostringsbitbit64bitopsblobcachemclicodetoolscpp11crayoncurlDBIdbplyrDelayedArraydplyrfansifastmapfilelockformatRfutile.loggerfutile.optionsgenericsGenomeInfoDbGenomeInfoDbDataGenomicAlignmentsGenomicRangesgluehttrIRangesjsonlitelambda.rlatticelifecyclemagrittrMatrixMatrixGenericsmatrixStatsmemoisemimeopensslpillarpkgconfigplogrpurrrR.methodsS3R.ooR.utilsR6RCurlrestfulrRhtslibrjsonrlangRsamtoolsRSQLitertracklayerS4ArraysS4VectorssnowSparseArraystringistringrSummarizedExperimentsystibbletidyrtidyselectUCSC.utilsutf8vctrswithrXMLXVectoryamlzlibbioc
Readme and manuals
Help Manual
Help page | Topics |
---|---|
Lift genomic coordinates from one genome assembly to another. | easylift |