baitfisher 1.0+dfsg-1 source package in Ubuntu


baitfisher (1.0+dfsg-1) unstable; urgency=medium

  * Initial release (Closes: #851342)

 -- Olivier Sallou <email address hidden>  Fri, 13 Jan 2017 10:27:13 +0000

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Uploaded by:
Debian Med on 2017-01-27
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Original maintainer:
Debian Med
Medium Urgency

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Series Pocket Published Component Section
Artful release on 2017-04-20 universe misc
Zesty release on 2017-01-27 universe misc


File Size SHA-256 Checksum
baitfisher_1.0+dfsg-1.dsc 1.9 KiB d0025119cf8a9fb2056f027e5c9f70476d1de8115b8e98e84c89ca4e91eb9cba
baitfisher_1.0+dfsg.orig.tar.xz 217.6 KiB 3d826dca179e46562cb7b51e72ff583f95370f7b6331ab895d3c9a13d172cb69
baitfisher_1.0+dfsg-1.debian.tar.xz 3.5 KiB 4825cce79a58caf2f14d6181b4dd7c860c0ce3cc6cd591c5fd5b80389e9621a7

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Binary packages built by this source

baitfisher: software package for designing hybrid enrichment probes

 The BaitFisher package consists of two programs: BaitFisher and BaitFilter.
 BaitFisher was been designed to construct hybrid enrichment baits from
 multiple sequence alignments (MSAs) or annotated features in MSAs. The main
 goal of BaitFisher is to avoid redundancy in the construction of baits by
 designing fewer baits in conserved regions of the MSAs and designing more baits
 in variable regions. This makes use of the fact that hybrid enrichment baits
 can differ to some extends from the target region, which they should capture
 in the enrichment procedure.
 By specifying the allowed distance between baits and the sequences in the MSAs
 the user can control the allowed bait-to-target distance and the degree of
 reduction in the number of baits that are designed.
 See the BaitFisher paper for details.
 BaitFilter was designed (i) to determine whether baits bind unspecifically to
 a reference genome, (ii) to filter baits that only have partial length matches
 to a reference genome, (iii) to determine the optimal bait region in a MSA and
 to convert baits to a format that can be uploaded at a bait constructing
 company. The optimal bait region can be the most conserved region in the MSA
 or the region with the highest number of sequences without gaps or ambiguous