Source: mapsembler2 Maintainer: Debian Med Packaging Team Uploaders: Olivier Sallou , Andreas Tille Section: science Priority: optional Build-Depends: debhelper (>= 11~), cmake, bc, zlib1g-dev, libhdf5-dev, libcppunit-dev, libboost-dev Standards-Version: 4.2.1 Vcs-Browser: https://salsa.debian.org/med-team/mapsembler2 Vcs-Git: https://salsa.debian.org/med-team/mapsembler2.git Homepage: http://colibread.inria.fr/mapsembler2/ Package: mapsembler2 Architecture: amd64 arm64 armel armhf hurd-i386 i386 kfreebsd-amd64 kfreebsd-i386 ppc64el s390x Depends: ${misc:Depends}, ${shlibs:Depends}, zlib1g, bc Description: bioinformatics targeted assembly software Mapsembler2 is a targeted assembly software. It takes as input a set of NGS raw reads (fasta or fastq, gzipped or not) and a set of input sequences (starters). . It first determines if each starter is read-coherent, e.g. whether reads confirm the presence of each starter in the original sequence. Then for each read-coherent starter, Mapsembler2 outputs its sequence neighborhood as a linear sequence or as a graph, depending on the user choice. . Mapsembler2 may be used for (not limited to): - Validate an assembled sequence (input as starter), e.g. from a de Bruijn graph assembly where read-coherence was not enforced. - Checks if a gene (input as starter) has an homolog in a set of reads - Checks if a known enzyme is present in a metagenomic NGS read set. - Enrich unmappable reads by extending them, possibly making them mappable - Checks what happens at the extremities of a contig - Remove contaminants or symbiont reads from a read set