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Source: jellyfish
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Shaun Jackman <sjackman@debian.org>,
Andreas Tille <tille@debian.org>,
Michael R. Crusoe <michael.crusoe@gmail.com>
Section: science
Priority: optional
Build-Depends: debhelper (>= 11~),
d-shlibs,
yaggo,
pkg-config,
bc,
time,
procps,
swig,
python3-all-dev,
python-all-dev,
dh-python,
perl,
chrpath
Standards-Version: 4.3.0
Vcs-Browser: https://salsa.debian.org/med-team/jellyfish
Vcs-Git: https://salsa.debian.org/med-team/jellyfish.git
Homepage: http://www.cbcb.umd.edu/software/jellyfish/
Package: jellyfish
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends},
libjellyfish-2.0-2 (= ${binary:Version})
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.
Package: libjellyfish-2.0-2
Architecture: any
Multi-Arch: same
Section: libs
Depends: ${shlibs:Depends},
${misc:Depends}
Description: count k-mers in DNA sequences (dynamic library of 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. 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 package contains the dynamic library the main executable of
jellyfish is linked to.
Package: libjellyfish-2.0-dev
Architecture: any
Multi-Arch: same
Section: libdevel
Depends: ${misc:Depends},
libjellyfish-2.0-2 (= ${binary:Version})
Description: count k-mers in DNA sequences (development files of 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. 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 package contains the development files (static library and
header files)
#Package: python3-dna-jellyfish
#Architecture: any
#Section: python
#Depends: ${python3:Depends},
# ${misc:Depends},
# ${shlibs:Depends}
#Description: count k-mers in DNA sequences (Python bindings of 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. 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 package contains the Python bindings of jellyfish.
Package: libjellyfish-perl
Architecture: any
Multi-Arch: same
Section: perl
Depends: ${perl:Depends},
${misc:Depends},
${shlibs:Depends}
Description: count k-mers in DNA sequences (Perl bindings of 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. 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 package contains the Perl bindings of jellyfish.
Package: jellyfish-examples
Architecture: any
Depends: jellyfish,
${shlibs:Depends},
${misc:Depends}
Description: count k-mers in DNA sequences (examples for testing)
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 package contains examples to test the package
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