Ubuntu
pbdagcon package

pbdagcon 0~20151114+git1d12e13+ds-2 source package in Ubuntu

Changelog

pbdagcon (0~20151114+git1d12e13+ds-2) unstable; urgency=medium

  * Adjust packaging for differences in pbseqlib organization.

 -- Afif Elghraoui <email address hidden>  Fri, 22 Jan 2016 07:43:17 -0800

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

See full publishing history Publishing

Series Pocket Published Component Section
Xenial release universe misc

Downloads

File Size SHA-256 Checksum
pbdagcon_0~20151114+git1d12e13+ds-2.dsc 2.1 KiB c93e4baf78b2861102602668b2edcd12874048a65be6026a0cece529ff89320a
pbdagcon_0~20151114+git1d12e13+ds.orig.tar.xz 100.5 KiB f63f0fa331d37a6ce5f508648d6cb64239f53610b5b251b3ab97eddad687b0fa
pbdagcon_0~20151114+git1d12e13+ds-2.debian.tar.xz 5.1 KiB 4316f1775c20bf4e7f0d641fa0a4e4cbac0013d0f07a36626adee54f1b1901bb

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.

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