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[ Källkod: mapsembler2  ]

Paket: mapsembler2 (2.2.4+dfsg-3 och andra)

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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

Andra paket besläktade med mapsembler2

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  • rekommenderar
  • föreslår
  • enhances

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Hämtningar för alla tillgängliga arkitekturer
Arkitektur Version Paketstorlek Installerad storlek Filer
arm64 2.2.4+dfsg-3+b1 223,8 kbyte739,0 kbyte [filförteckning]