recipe kmer-jellyfish

Jellyfish is a tool for fast, memory-efficient counting of k-mers in DNA. A k-mer is a substring of length k, and counting the occurrences of all such substrings is a central step in many analyses of DNA sequence

Homepage:

http://www.genome.umd.edu/jellyfish.html

Developer docs:

https://github.com/gmarcais/Jellyfish

License:

GPL / GPL-3.0

Recipe:

/kmer-jellyfish/meta.yaml

Links:

biotools: jellyfish, doi: 10.1093/bioinformatics/btr011

package kmer-jellyfish

Versions:

2.3.0-3,  2.3.0-2,  2.3.0-1,  2.3.0-0,  1.1.12-2,  1.1.12-1,  1.1.12-0

Depends:

• libgcc-ng >=10.3.0

• libstdcxx-ng >=10.3.0

Required By:

• kraken

• repdenovo

• focus

• rcorrector

• skmer

• howdesbt

• symbiontscreener

• krakenuniq

• livekraken

• rfplasmid

• rop

• shannon

• shannon_cpp

• super-focus

• trinity

• quorum

• chorus2

Installation

With an activated Bioconda channel (see set-up-channels), install with:

conda install kmer-jellyfish

and update with:

conda update kmer-jellyfish

or use the docker container:

docker pull quay.io/biocontainers/kmer-jellyfish:<tag>

(see kmer-jellyfish/tags for valid values for <tag>)

Download stats

Link to this page

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