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[ Paquet source : mapsembler2  ]

Paquet : mapsembler2 (2.2.4+dfsg1-3)

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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

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Architecture Taille du paquet Espace occupé une fois installé Fichiers
amd64 707,2 ko1 282,0 ko [liste des fichiers]
arm64 685,2 ko1 246,0 ko [liste des fichiers]
ppc64el 722,1 ko1 570,0 ko [liste des fichiers]
s390x 683,0 ko1 306,0 ko [liste des fichiers]