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Source: jellyfish1
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Shaun Jackman <sjackman@debian.org>,
Andreas Tille <tille@debian.org>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13)
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/jellyfish1
Vcs-Git: https://salsa.debian.org/med-team/jellyfish1.git
Homepage: https://www.cbcb.umd.edu/software/jellyfish/
Rules-Requires-Root: no
Package: jellyfish1
Architecture: amd64 arm64 loong64 mips64el ppc64el hppa ia64 kfreebsd-amd64 riscv64
Depends: ${shlibs:Depends},
${misc:Depends}
Enhances: kraken
Description: count k-mers in DNA sequences
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. JELLYFISH can count k-mers using an order of magnitude less
memory and an order of magnitude faster than other k-mer counting
packages by using an efficient encoding of a hash table and by
exploiting the "compare-and-swap" CPU instruction to increase
parallelism.
.
JELLYFISH is a command-line program that reads FASTA and multi-FASTA
files containing DNA sequences. It outputs its k-mer counts in an
binary format, which can be translated into a human-readable text
format using the "jellyfish dump" command.
.
This is the latest version of the 1.x series of jellyfish which is
used by some other applications that are not compatible with version
2.x which is provided inside the jellyfish package.
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