Source: mindthegap Maintainer: Debian Med Packaging Team Uploaders: Shayan Doust , Étienne Mollier Section: science Priority: optional Build-Depends: debhelper-compat (= 13), cmake, libgatbcore-dev (>= 1.4.2+dfsg-7), libboost-dev, zlib1g-dev, libhdf5-dev Standards-Version: 4.7.0 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-amd64 arm64 loong64 mips64el ppc64el ia64 ppc64 riscv64 sparc64 alpha Depends: ${shlibs:Depends}, ${misc:Depends}, libgatbcore3 (>= 1.4.2+dfsg-7) 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:any, bsdextrautils 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.