pbdagcon 0.3+20161121+ds-1 source package in Ubuntu

Changelog

pbdagcon (0.3+20161121+ds-1) unstable; urgency=medium

  * New upstream revision (upstream git 87f393f)
  * Include repository's submodules
  * Base package versioning on program versions indicated in the source code
  * Build with pbbam (Closes: #848755)
  * Use pbseqlib metapackages as dependencies
  * Build dazcon
  * Activate build-time tests
  * Use debhelper compat 10

 -- Afif Elghraoui <email address hidden>  Wed, 21 Dec 2016 01:18:19 -0800

Upload details

Uploaded by:
Debian Med on 2016-12-21
Uploaded to:
Sid
Original maintainer:
Debian Med
Architectures:
any
Section:
misc
Urgency:
Medium Urgency

See full publishing history Publishing

Series Pocket Published Component Section
Artful release on 2017-04-20 universe misc
Zesty release on 2017-03-08 universe misc

Downloads

File Size SHA-256 Checksum
pbdagcon_0.3+20161121+ds-1.dsc 2.0 KiB ff0957d4062efdae06a5647f54d9c9d56a89d1badd0571e2c7968541f40ad8a5
pbdagcon_0.3+20161121+ds.orig.tar.gz 250.4 KiB 897b6210e2abf6d15ba7ad9718aa21527bcbd7540e307882e1688abddd8eca17
pbdagcon_0.3+20161121+ds-1.debian.tar.xz 4.8 KiB 5b10ef92fbeabf80a7c99df62ee4905e8abcc0a3482d242624da8d12b02c63bc

No changes file available.

Binary packages built by this source

pbdagcon: sequence consensus using directed acyclic graphs

 pbdagcon is a tool that implements DAGCon (Directed Acyclic Graph Consensus)
 which is a sequence consensus algorithm based on using directed acyclic
 graphs to encode multiple sequence alignment.
 .
 It uses the alignment information from blasr to align sequence reads to a
 "backbone" sequence. Based on the underlying alignment directed acyclic graph
 (DAG), it will be able to use the new information from the reads to find the
 discrepancies between the reads and the "backbone" sequences. A dynamic
 programming process is then applied to the DAG to find the optimum sequence
 of bases as the consensus. The new consensus can be used as a new backbone
 sequence to iteratively improve the consensus quality.
 .
 While the code is developed for processing PacBio(TM) raw sequence data,
 the algorithm can be used for general consensus purpose. Currently, it only
 takes FASTA input. For shorter read sequences, one might need to adjust the
 blasr alignment parameters to get the alignment string properly.
 .
 The code and the underlying graphical data structure have been used for some
 algorithm development prototyping including phasing reads and pre-assembly.

pbdagcon-dbgsym: debug symbols for package pbdagcon

 pbdagcon is a tool that implements DAGCon (Directed Acyclic Graph Consensus)
 which is a sequence consensus algorithm based on using directed acyclic
 graphs to encode multiple sequence alignment.
 .
 It uses the alignment information from blasr to align sequence reads to a
 "backbone" sequence. Based on the underlying alignment directed acyclic graph
 (DAG), it will be able to use the new information from the reads to find the
 discrepancies between the reads and the "backbone" sequences. A dynamic
 programming process is then applied to the DAG to find the optimum sequence
 of bases as the consensus. The new consensus can be used as a new backbone
 sequence to iteratively improve the consensus quality.
 .
 While the code is developed for processing PacBio(TM) raw sequence data,
 the algorithm can be used for general consensus purpose. Currently, it only
 takes FASTA input. For shorter read sequences, one might need to adjust the
 blasr alignment parameters to get the alignment string properly.
 .
 The code and the underlying graphical data structure have been used for some
 algorithm development prototyping including phasing reads and pre-assembly.