Package: Rminibwa 0.4.0-0.0.1.9000

Sounkou Mahamane Toure

Rminibwa: Native R Bindings and SIMD Dispatch for 'minibwa'

Provides native R bindings to the 'minibwa' genomic read aligner with raw-vector query input, external-pointer alignment batches, ALTREP column views, and an installed C API for downstream packages. The package builds staged Single Instruction Multiple Data ('SIMD') KSW backends and selects portable scalar, SSE4, or AVX2 code at runtime without global instruction-set compiler flags.

Authors:Sounkou Mahamane Toure [aut, cre], Abiomix FZ LLC [cph, fnd], Dana-Farber Cancer Institute [cph], Ilya Grebnov [cph], N. Jesper Larsson [cph], Wong Chi Kwong [cph]

Rminibwa_0.4.0-0.0.1.9000.tar.gz
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manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
Rminibwa/json (API)

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

Bug tracker:https://github.com/abiomix/abiomix-r-open/issues

Pkgdown/docs site:https://sounkou-bioinfo.github.io

Uses libs:
  • zlib– Compression library

On CRAN:

Conda:

zlib

3.30 score 10 scripts 26 exports 1 dependencies

Last updated from:dd82290ba2. Checks:13 OK. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64OK183
linux-devel-x86_64OK153
source / vignettesOK242
linux-release-arm64OK176
linux-release-x86_64OK195
macos-release-arm64OK97
macos-release-x86_64OK264
macos-oldrel-arm64OK85
macos-oldrel-x86_64OK272
windows-develOK147
windows-releaseOK159
windows-oldrelOK128
wasm-releaseOK123

Exports:mb_align_cigar_wordsmb_align_colmb_align_nmb_align_read_colmb_align_read_nmb_fastx_itermb_fastx_nmb_fastx_nextmb_index_buildmb_index_contigsmb_index_loadmb_mapmb_map_batchmb_map_fastx_batchmb_map_pair_batchmb_optsminibwa_availableminibwa_climinibwa_indexminibwa_mapminibwa_pathminibwa_upstream_infominibwa_versionsimd_backendsimd_infosimd_set_backend

Dependencies:RsimdDispatch

Downstream C API
Build a tiny alignment batch | The downstream C consumer | Compile and call it with Rtinycc
Rendered fromdownstream-c-api.Rmdusingknitr::rmarkdown

Last update: 2026-07-13
Started: 2026-07-13

Getting Started
Rendered fromgetting-started.Rmdusingknitr::rmarkdown

Last update: 2026-07-13
Started: 2026-07-13

SIMDe Dispatch Design
Boundary | Backends | R surface | Validation
Rendered fromsimde-dispatch.Rmdusingknitr::rmarkdown

Last update: 2026-07-13
Started: 2026-07-13

Vendoring minibwa
Pin file | Patch queue | Developer checkout | Vendored source
Rendered fromvendoring-minibwa.Rmdusingknitr::rmarkdown

Last update: 2026-07-13
Started: 2026-07-13