minimapR: Wrapper for 'minimap2'

Wrapper for 'Minimap2'. 'Minimap2' is a very valuable long read aligner for the Pacbio and Oxford Nanopore Technologies sequencing platforms. 'minimapR' is an R wrapper for 'minimap2' which was developed by Heng Li <me@liheng.org>. *SPECIAL NOTES 1. Examples can only be run from 'GitHub' installation. 2. 'conda' or 'mamba' must be used to install 'minimapR' on your system. 3. For Windows users, 'minimap2' and 'samtools' can be installed via MSYS2, instructions are provided when 'minimap2_installation()' is run. Li, Heng (2018) <doi:10.1093/bioinformatics/bty191> "Minimap2: pairwise alignment for nucleotide sequences".

Version: 0.0.1.3
Depends: R (≥ 4.4.0), Rsamtools, pafr
Suggests: knitr, rmarkdown
Published: 2025-04-09
Author: Jake Reed ORCID iD [aut, cre], Pradyun Pulipaka [ctb]
Maintainer: Jake Reed <hreed.ga at gmail.com>
License: MIT + file LICENSE
URL: https://github.com/jake-bioinfo/minimapR
NeedsCompilation: no
Materials: README
CRAN checks: minimapR results

Documentation:

Reference manual: minimapR.pdf
Vignettes: Using minimapR (source, R code)

Downloads:

Package source: minimapR_0.0.1.3.tar.gz
Windows binaries: r-devel: minimapR_0.0.1.1.zip, r-release: minimapR_0.0.1.1.zip, r-oldrel: not available
macOS binaries: r-devel (arm64): minimapR_0.0.1.3.tgz, r-release (arm64): minimapR_0.0.1.3.tgz, r-oldrel (arm64): not available, r-devel (x86_64): minimapR_0.0.1.3.tgz, r-release (x86_64): minimapR_0.0.1.3.tgz, r-oldrel (x86_64): not available
Old sources: minimapR archive

Linking:

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