Contains tools for rapidly computing distance matrices and clustering large sequence datasets using fast alignment-free k-mer counting and recursive k-means partitioning. See Vinga and Almeida (2003) <doi:10.1093/bioinformatics/btg005> for a review of k-mer counting methods and applications for biological sequence analysis.
| Version: | 1.1.2 |
| Imports: | openssl,phylogram,Rcpp (≥ 0.12.13) |
| LinkingTo: | Rcpp |
| Suggests: | ape (≥ 4.0),dendextend,knitr,rmarkdown,testthat |
| Published: | 2019-05-20 |
| DOI: | 10.32614/CRAN.package.kmer |
| Author: | Shaun Wilkinson [aut, cre] |
| Maintainer: | Shaun Wilkinson <shaunpwilkinson at gmail.com> |
| BugReports: | http://github.com/shaunpwilkinson/kmer/issues |
| License: | GPL-3 |
| URL: | http://github.com/shaunpwilkinson/kmer |
| NeedsCompilation: | yes |
| Citation: | kmer citation info |
| Materials: | README |
| CRAN checks: | kmer results[issues need fixing before 2025-12-18] |
| Reference manual: | kmer.html ,kmer.pdf |
| Vignettes: | Introduction to the kmer package (source,R code) |
| Package source: | kmer_1.1.2.tar.gz |
| Windows binaries: | r-devel:kmer_1.1.2.zip, r-release:kmer_1.1.2.zip, r-oldrel:kmer_1.1.2.zip |
| macOS binaries: | r-release (arm64):kmer_1.1.2.tgz, r-oldrel (arm64):kmer_1.1.2.tgz, r-release (x86_64):kmer_1.1.2.tgz, r-oldrel (x86_64):kmer_1.1.2.tgz |
| Old sources: | kmer archive |
| Reverse imports: | aphid,copyseparator,insect,packFinder |
| Reverse suggests: | Platypus |
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