Пакет: mapsembler2 (2.2.4+dfsg1-4)

Ссылки для mapsembler2

Ресурсы Trisquel:

Исходный код mapsembler2:

Сопровождающий:

Debian Med Packaging Team (Почтовый архив)

Original Maintainers:

Debian Med Packaging Team (Почтовый архив)
Olivier Sallou
Andreas Tille
Étienne Mollier

Внешние ресурсы:

Сайт [colibread.inria.fr]

Подобные пакеты:

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

Другие пакеты, относящиеся к mapsembler2

зависимости

рекомендации

предложения

dep: bc

GNU bc arbitrary precision calculator language
dep: libc6 (>= 2.34)

GNU C Library: Shared libraries
также виртуальный пакет, предоставляемый 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

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