Ubuntu
smalt package

smalt 0.7.6-12 source package in Ubuntu

Changelog

smalt (0.7.6-12) unstable; urgency=medium

  * Team Upload.
  * Make build cross buildable
    - d/control: Annotate python3 with <!nocheck>
    - d/p/add-runstatedir.patch: Add --runstatedir to configure script
    - d/rules: Use dh_auto_configure instead of home-grown command

 -- Nilesh Patra <email address hidden>  Thu, 16 Dec 2021 20:11:13 +0530

Upload details

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

See full publishing history Publishing

Series Pocket Published Component Section
Mantic release universe misc
Lunar release universe misc
Jammy release universe misc

Downloads

File Size SHA-256 Checksum
smalt_0.7.6-12.dsc 2.1 KiB 1acbcc1f819f539ab98009d070d5bfe3fe7d75ee706f1ff2600c37369f3b5076
smalt_0.7.6.orig.tar.gz 68.9 MiB 89ccdfe471edba3577b43de9ebfdaedb5cd6e26b02bf4000c554253433796b31
smalt_0.7.6-12.debian.tar.xz 9.6 KiB ac8d054c8c4ad8a4301e7bd8f73032b8f3a987979fbca520f0022add890d700b

Available diffs

No changes file available.

Binary packages built by this source

smalt: Sequence Mapping and Alignment Tool

 SMALT efficiently aligns DNA sequencing reads with a reference genome.
 Reads from a wide range of sequencing platforms, for example Illumina,
 Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including
 paired reads.
 .
 The software employs a perfect hash index of short words (< 20
 nucleotides long), sampled at equidistant steps along the genomic
 reference sequences.
 .
 For each read, potentially matching segments in the reference are
 identified from seed matches in the index and subsequently aligned with
 the read using a banded Smith-Waterman algorithm.
 .
 The best gapped alignments of each read is reported including a score
 for the reliability of the best mapping. The user can adjust the
 trade-off between sensitivity and speed by tuning the length and spacing
 of the hashed words.
 .
 A mode for the detection of split (chimeric) reads is provided.
 Multi-threaded program execution is supported.

smalt-dbgsym: debug symbols for smalt
smalt-examples: Sequence Mapping and Alignment Tool (examples)

 SMALT efficiently aligns DNA sequencing reads with a reference genome.
 Reads from a wide range of sequencing platforms, for example Illumina,
 Roche-454, Ion Torrent, PacBio or ABI-Sanger, can be processed including
 paired reads.
 .
 The software employs a perfect hash index of short words (< 20
 nucleotides long), sampled at equidistant steps along the genomic
 reference sequences.
 .
 For each read, potentially matching segments in the reference are
 identified from seed matches in the index and subsequently aligned with
 the read using a banded Smith-Waterman algorithm.
 .
 The best gapped alignments of each read is reported including a score
 for the reliability of the best mapping. The user can adjust the
 trade-off between sensitivity and speed by tuning the length and spacing
 of the hashed words.
 .
 A mode for the detection of split (chimeric) reads is provided.
 Multi-threaded program execution is supported.
 .
 This package contains example data and a test suite to test the data.