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[ Source: mapsembler2  ]

Package: mapsembler2 (2.2.4+dfsg-3 and others)

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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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Download mapsembler2

Download for all available architectures
Architecture Version Package Size Installed Size Files
alpha (unofficial port) 2.2.3+dfsg-1 241.2 kB910.0 kB [list of files]
amd64 2.2.4+dfsg-3+b1 242.5 kB787.0 kB [list of files]
arm64 2.2.4+dfsg-3+b1 223.8 kB739.0 kB [list of files]
armel 2.2.4+dfsg-3+b1 202.0 kB628.0 kB [list of files]
armhf 2.2.4+dfsg-3+b1 204.8 kB484.0 kB [list of files]
hppa (unofficial port) 2.2.3+dfsg-1 241.5 kB803.0 kB [list of files]
i386 2.2.4+dfsg-3+b1 258.4 kB780.0 kB [list of files]
m68k (unofficial port) 2.1.6+dfsg-1 262.2 kB453.0 kB [list of files]
ppc64 (unofficial port) 2.2.3+dfsg-1 228.6 kB928.0 kB [list of files]
ppc64el 2.2.4+dfsg-3+b1 259.5 kB1,072.0 kB [list of files]
s390x 2.2.4+dfsg-3+b1 217.9 kB803.0 kB [list of files]
sh4 (unofficial port) 2.1.6+dfsg-1 285.5 kB469.0 kB [list of files]
sparc64 (unofficial port) 2.1.6+dfsg-1 263.1 kB458.0 kB [list of files]
x32 (unofficial port) 2.2.3+dfsg-1 233.7 kB706.0 kB [list of files]