Introduction | Installation | Overview | Build a reference index with bwa_build_index | Aligment with bwa_aln | Creating a SAM file | Creating a SAM file with secondary alignments | Aligment with bwa_mem | Session info | References
Package: Rbwa 1.17.0
Jean-Philippe Fortin
Rbwa: R wrapper for BWA-backtrack and BWA-MEM aligners
Provides an R wrapper for BWA alignment algorithms. Both BWA-backtrack and BWA-MEM are available. Convenience function to build a BWA index from a reference genome is also provided. Currently not supported for Windows machines.
Authors:
Rbwa_1.17.0.tar.gz
Rbwa_1.17.0.tgz(r-4.6-x86_64)Rbwa_1.17.0.tgz(r-4.6-arm64)Rbwa_1.17.0.tgz(r-4.5-x86_64)Rbwa_1.17.0.tgz(r-4.5-arm64)
Rbwa_1.17.0.tar.gz(r-4.7-arm64)Rbwa_1.17.0.tar.gz(r-4.7-x86_64)Rbwa_1.17.0.tar.gz(r-4.6-arm64)Rbwa_1.17.0.tar.gz(r-4.6-x86_64)
Rbwa_1.17.0.tgz(r-4.6-emscripten)
manual.pdf |manual.html✨
DESCRIPTION |NEWS
card.svg |card.png
Rbwa/json (API)
| # Install 'Rbwa' in R: |
| install.packages('Rbwa', repos = c('https://bioc.r-universe.dev', 'https://cloud.r-project.org')) |
Bug tracker:https://github.com/crisprverse/rbwa/issues
On BioConductor:Rbwa-1.17.0(bioc 3.24)Rbwa-1.16.0(bioc 3.23)
sequencingalignmentbwabwa-memdna-sequencesdna-sequencing
Last updated from:865761423b. Checks:12 WARNING, 1 ERROR, 1 OK. Indexed: yes.
| Target | Result | Time | Files | Syslog |
|---|---|---|---|---|
| bioc-checks | WARNING | 156 | ||
| linux-devel-arm64 | WARNING | 165 | ||
| linux-devel-x86_64 | WARNING | 193 | ||
| source / vignettes | ERROR | 203 | ||
| linux-release-arm64 | WARNING | 145 | ||
| linux-release-x86_64 | WARNING | 188 | ||
| macos-release-arm64 | WARNING | 95 | ||
| macos-release-x86_64 | WARNING | 265 | ||
| macos-oldrel-arm64 | WARNING | 75 | ||
| macos-oldrel-x86_64 | WARNING | 240 | ||
| windows-devel | WARNING | 61 | ||
| windows-release | WARNING | 69 | ||
| windows-oldrel | WARNING | 66 | ||
| wasm-release | OK | 118 |
Exports:bwa_alnbwa_build_indexbwa_membwa_samxa2multi
Dependencies:
Vignettes and/or manual for this package failed to build, some documents may be unavailable. Please inspect thebuild logs for more information.
An introduction to Rbwa
Last update: 2022-03-22
Started: 2022-01-21
Readme and manuals
Help Manual
| Help page | Topics |
|---|---|
| R wrapper to run BWA alignment tool BWA-backtrack | bwa_aln |
| R wrapper to create BWA index files | bwa_build_index |
| R wrapper to run BWA alignment tool BWA-MEM | bwa_mem |
| R wrapper to convert bwa aln output to SAM format | bwa_sam |
| Unpack multiple alignments stored in BWA output | xa2multi |
