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Package: mapsembler2 (2.2.4+dfsg1-4)

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mapsembler2

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Download Source Package mapsembler2:

Maintainer:

Original Maintainers:

  • Debian Med Packaging Team (Mail Archive)
  • Olivier Sallou
  • Andreas Tille
  • Étienne Mollier

External Resources:

Similar packages:

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

Other Packages Related to mapsembler2

  • depends
  • recommends
  • suggests
  • dep: bc
    GNU bc arbitrary precision calculator language
  • dep: libc6 (>= 2.34)
    GNU C Library: Shared libraries
    also a virtual package provided by libc6-udeb
  • dep: libgcc-s1 (>= 3.3.1)
    GCC support library
  • dep: libgomp1 (>= 4.9)
    GCC OpenMP (GOMP) support library
  • dep: libstdc++6 (>= 11)
    GNU Standard C++ Library v3
  • dep: zlib1g (>= 1:1.2.3.4)
    compression library - runtime

Download mapsembler2

Download for all available architectures
Architecture Package Size Installed Size Files
amd64 679.3 kB1139 kB [list of files]
arm64 670.8 kB1087 kB [list of files]
ppc64el 702.2 kB1379 kB [list of files]