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Source: mindthegap
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Shayan Doust <hello@shayandoust.me>
Section: science
Priority: optional
Build-Depends: debhelper-compat (= 13),
cmake,
libgatbcore-dev,
libboost-dev,
zlib1g-dev,
libhdf5-dev
Standards-Version: 4.5.0
Vcs-Browser: https://salsa.debian.org/med-team/mindthegap
Vcs-Git: https://salsa.debian.org/med-team/mindthegap.git
Homepage: https://github.com/GATB/MindTheGap
Rules-Requires-Root: no
Package: mindthegap
Architecture: any
Depends: ${shlibs:Depends},
${misc:Depends},
libgatbcore3
Description: performs detection and assembly of DNA insertion variants in NGS read datasets
Designed to call insertions of any size, whether they are novel or
duplicated, homozygous or heterozygous in the donor genome. It takes as
input a set of reads and a reference genome. It outputs two sets of
FASTA sequences: one is the set of breakpoints of detection insertion
sites, the other is the set of assembled insertions for each
breakpoint. MindTheGap can also be used as a genome assembly finishing
tool. It can fill the gaps between a set of input contigs without any a
priori on their relative order and orientation. It outputs the results
in gfa file.
Package: mindthegap-examples
Architecture: all
Depends: ${misc:Depends},
python3,
bsdextrautils | bsdmainutils (<< 12.1.1~)
Recommends: mindthegap
Description: optional scripts and example resources for mindthegap
Designed to call insertions of any size, whether they are novel or
duplicated, homozygous or heterozygous in the donor genome. it takes
as input a set of reads and a reference genome. It outputs two sets
of FASTA sequences: one is the set of breakpoints of detection
insertion sites, the other is the set of assembled insertions for
each breakpoint. MindTheGap can also be used as a genome assembly
finishing tool. It can fill the gap between a set of input contigs
without any a priori on their relative order and orientation. It
outputs the results in gfa file. Please note that this package is
meant to accommodate the mindthegap package and only acts as example
to how this package can be utilised.
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