Package: kmer 1.1.2.9000

kmer: Fast K-Mer Counting and Clustering for Biological Sequence Analysis

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.

Authors:Shaun Wilkinson [aut, cre]

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kmer.pdf |kmer.html✨
kmer/json (API)

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

Peer review:

Bug tracker:https://github.com/shaunpwilkinson/kmer/issues

Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

5 exports 26 stars 6.47 score 9 dependencies 6 dependents 240 mentions 61 scripts 429 downloads

Last updated 5 years agofrom:d9781af956. Checks:OK: 1 NOTE: 8. Indexed: yes.

TargetResultDate
Doc / VignettesOKSep 08 2024
R-4.5-win-x86_64NOTESep 08 2024
R-4.5-linux-x86_64NOTESep 08 2024
R-4.4-win-x86_64NOTESep 08 2024
R-4.4-mac-x86_64NOTESep 08 2024
R-4.4-mac-aarch64NOTESep 08 2024
R-4.3-win-x86_64NOTESep 08 2024
R-4.3-mac-x86_64NOTESep 08 2024
R-4.3-mac-aarch64NOTESep 08 2024

Exports:clusterkcountkdistancembedotu

Dependencies:apeaskpassdigestlatticenlmeopensslphylogramRcppsys

Introduction to the kmer R package

Shaun Wilkinson

Rendered fromkmer-vignette.Rmdusingknitr::rmarkdownon Sep 08 2024.

Last update: 2019-03-15
Started: 2018-02-16