rchime: Detect and Remove Chimeras from Amplicon Sequence Analysis Data
Detect and remove chimeras from your amplicon sequence analysis using reference-based or de novo approaches. The 'rchime' package implements the 'VSEARCH' algorithms described in Rognes et al. (2016) <doi:10.7717/peerj.2584>. 'VSEARCH' builds on the work of Edgar,R.C. et al. (2011) <doi:10.1093/bioinformatics/btr381>.
| Version: | 0.1.0 |
| Depends: | Rcpp, R (≥ 4.5.0), strollur (≥ 0.1.3) |
| Imports: | cli, parallelly, RcppThread, utils |
| LinkingTo: | Rcpp, RcppThread, RcppXsimd, cli |
| Suggests: | knitr, rmarkdown, xml2, pak, testthat (≥ 3.0.0) |
| Published: | 2026-07-23 |
| DOI: | 10.32614/CRAN.package.rchime (may not be active yet) |
| Author: | Sarah Westcott 
[aut],
Pat Schloss [cph,
cre],
Torbjorn Rognes [cph],
Frederic Mahe [cph],
Tomas Flouri [cph],
Christopher Quince [cph],
Ben Nichols [cph] |
| Maintainer: | Pat Schloss <pschloss at umich.edu> |
| BugReports: | https://github.com/mothur/rchime/issues |
| License: | GPL (≥ 3) |
| URL: | https://github.com/mothur/rchime, https://mothur.org/rchime/ |
| NeedsCompilation: | yes |
| Citation: | rchime citation info |
| Materials: | README, NEWS |
| CRAN checks: | rchime results |
Documentation:
| Reference manual: | rchime.html , rchime.pdf |
| Vignettes: |
chimera_report (source, R code) De novo Chimera Detection (source, R code) Getting Started (source, R code) Reference Based Chimera Detection (source, R code) |
Downloads:
| Package source: | rchime_0.1.0.tar.gz |
| Windows binaries: | r-devel: not available, r-release: not available, r-oldrel: not available |
| macOS binaries: | r-release (arm64): rchime_0.1.0.tgz, r-oldrel (arm64): not available, r-release (x86_64): not available, r-oldrel (x86_64): not available |
Linking:
Please use the canonical form https://CRAN.R-project.org/package=rchime to link to this page.