Package: BamScale 0.99.10

Chirag Parsania

BamScale: Bioconductor-Friendly Multithreaded BAM Processing

Multithreaded sequential BAM processing built on top of the ompBAM C++ engine. BamScale provides user-friendly BAM read and scan interfaces designed for compatibility with existing Bioconductor workflows.

Authors:Chirag Parsania [aut, cre]

BamScale_0.99.10.tar.gz
BamScale_0.99.10.zip(r-4.7)BamScale_0.99.10.zip(r-4.6)BamScale_0.99.10.zip(r-4.5)
BamScale_0.99.10.tgz(r-4.6-x86_64)BamScale_0.99.10.tgz(r-4.6-arm64)BamScale_0.99.10.tgz(r-4.5-x86_64)BamScale_0.99.10.tgz(r-4.5-arm64)
BamScale_0.99.10.tar.gz(r-4.7-arm64)BamScale_0.99.10.tar.gz(r-4.7-x86_64)BamScale_0.99.10.tar.gz(r-4.6-arm64)BamScale_0.99.10.tar.gz(r-4.6-x86_64)
BamScale_0.99.10.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
card.svg |card.png
BamScale/json (API)

# Install 'BamScale' in R:
install.packages('BamScale', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/cparsania/bamscale/issues

Pkgdown/docs site:https://cparsania.github.io

Uses libs:
  • c++– GNU Standard C++ Library v3

On BioConductor:BamScale-0.99.9(bioc 3.24)

softwaredataimportsequencingcoveragealignmentqualitycontrolcpp

4.90 score 5 exports 35 dependencies

Last updated from:026ff90e05. Checks:1 NOTE, 13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
bioc-checksNOTE219
linux-devel-arm64OK229
linux-devel-x86_64OK246
source / vignettesOK280
linux-release-arm64OK237
linux-release-x86_64OK262
macos-release-arm64OK149
macos-release-x86_64OK226
macos-oldrel-arm64OK127
macos-oldrel-x86_64OK292
windows-develOK186
windows-releaseOK195
windows-oldrelOK144
wasm-releaseOK164

Exports:bam_countbam_readdecode_compact_qualdecode_compact_seqdecode_seqqual_compact

Dependencies:abindBHBiobaseBiocGenericsBiocParallelBiostringsbitopscigarillocodetoolscpp11crayonDelayedArrayformatRfutile.loggerfutile.optionsgenericsGenomicAlignmentsGenomicRangesIRangeslambda.rlatticeMatrixMatrixGenericsmatrixStatsompBAMRcppRhtslibRsamtoolsS4ArraysS4VectorsSeqinfosnowSparseArraySummarizedExperimentXVector

Benchmarking BamScale Across Step1, GAlignments, and SeqQual Workloads

Rendered frombenchmark-results.Rmdusingknitr::rmarkdownon May 26 2026.

Last update: 2026-04-20
Started: 2026-04-20

Getting started with BamScale

Chirag Parsania

Rendered fromBamScale-intro.Rmdusingknitr::rmarkdownon May 26 2026.

Last update: 2026-05-04
Started: 2026-04-20