Ubuntu
kmer-tools package

kmer-tools 0~20150903+r2013-1 source package in Ubuntu

Changelog

kmer-tools (0~20150903+r2013-1) unstable; urgency=low

  * Simplify get-orig-source script
  * Imported Upstream version 0~20150903+r2013
  * Clean up source package: move meryl manpages to a subdirectory of debian/
  * New binary packages:
    - leaff
    - sim4db
  * Drop build-dependency on libbz2-dev
  * Drop kazlib quilt patches
  * Fix section/architecture of the kmer metapackage
  * Set Vcs-Browser to point to cgit
  * Don't install other READMEs to metapackage docs
  * Update d/copyright
  * Update README.source
    - document situation with bundled kazlib
    - document reason for monolithic source package
  * Make the build system more flexible to hopefully fix build on kFreeBSD
  * Add README.Debian to let users know some components aren't yet packaged
  * Add comment for why we can't use dh --parallel

 -- Afif Elghraoui <email address hidden>  Sat, 02 Jan 2016 16:49:00 -0800

Upload details

Uploaded by:
Debian Med
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any all
Section:
misc
Urgency:
Low Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Xenial release universe misc

Downloads

File Size SHA-256 Checksum
kmer-tools_0~20150903+r2013-1.dsc 2.2 KiB f3783c5a944c21c3335416a88781dc723289feafb2cbc45f9ec8bcd2fe934d8e
kmer-tools_0~20150903+r2013.orig.tar.gz 1.2 MiB 8fd9c289244e69e38bb7709f3523d39edf1c2ced2cbcc687fcf00ecfca78ea47
kmer-tools_0~20150903+r2013-1.debian.tar.xz 17.1 KiB 0750e05916a61cca9ad712dc9db31bd07eecd37a8435b7afd4f797f1f333cf67

No changes file available.

Binary packages built by this source

kmer: No summary available for kmer in ubuntu zesty.

No description available for kmer in ubuntu zesty.

leaff: No summary available for leaff in ubuntu yakkety.

No description available for leaff in ubuntu yakkety.

leaff-dbgsym: debug symbols for package leaff

 LEAFF (Let's Extract Anything From Fasta) is a utility program for
 working with multi-fasta files. In addition to providing random access
 to the base level, it includes several analysis functions.
 .
 This package is part of the Kmer suite.

libkmer-dev: No summary available for libkmer-dev in ubuntu yakkety.

No description available for libkmer-dev in ubuntu yakkety.

libmeryl-dev: in- and out-of-core kmer counting and utilities (development lib)

 meryl computes the kmer content of genomic sequences. Kmer
 content is represented as a list of kmers and the number of
 times each occurs in the input sequences. The kmer can be
 restricted to only the forward kmer, only the reverse kmer,
 or the canonical kmer (lexicographically smaller of the
 forward and reverse kmer at each location). Meryl can
 report the histogram of counts, the list of kmers and their
 counts, or can perform mathematical and set operations
 on the processed data files.
 .
 This package contains the static libraries and header files.

meryl: No summary available for meryl in ubuntu yakkety.

No description available for meryl in ubuntu yakkety.

meryl-dbgsym: No summary available for meryl-dbgsym in ubuntu zesty.

No description available for meryl-dbgsym in ubuntu zesty.

sim4db: No summary available for sim4db in ubuntu zesty.

No description available for sim4db in ubuntu zesty.

sim4db-dbgsym: debug symbols for package sim4db

 Sim4db performs fast batch alignment of large cDNA (EST, mRNA) sequence
 sets to a set of eukaryotic genomic regions. It uses the sim4 and sim4cc
 algorithms to determine the alignments, but incorporates a fast sequence
 indexing and retrieval mechanism, implemented in the sister package
 'leaff', to speedily process large volumes of sequences.
 .
 While sim4db produces alignments in the same way as sim4 or sim4cc, it
 has additional features to make it more amenable for use with whole-genome
 annotation pipelines. A script file can be used to group pairings between
 cDNAs and their corresponding genomic regions, to be aligned as one run
 and using the same set of parameters. Sim4db also optionally reports more
 than one alignment for the same cDNA within a genomic region, as long
 as they meet user-defined criteria such as minimum length, percentage
 sequence identity or coverage. This feature is instrumental in finding
 all alignments of a gene family at one locus. Lastly, the output is
 presented either as custom sim4db alignments or as GFF3 gene features.
 .
 This package is part of the Kmer suite.