Pakket: mapsembler2 (2.2.4+dfsg1-4 en anderen)

[ Bron: mapsembler2  ]

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

Andere aan mapsembler2 gerelateerde pakketten

• dep: bc

  GNU bc arbitrary precision calculator language

• dep: libc6 (>= 2.11) [hppa]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6-udeb

  dep: libc6 (>= 2.16) [x32]

  dep: libc6 (>= 2.17) [sh4]

  dep: libc6 (>= 2.29) [amd64, ppc64el, s390x]

  dep: libc6 (>= 2.38) [arm64]

  dep: libc6 (>= 2.4) [m68k, sparc64]

  dep: libc6 (>= 2.8) [ppc64]

• dep: libc6.1 (>= 2.8) [alpha]

  GNU C Bibliotheek: Gedeelde bibliotheken
  Ook een virtueel pakket geboden door: libc6.1-udeb

• dep: libgcc-s1 (>= 3.0) [amd64, arm64, ppc64el, s390x]

  GCC support bibliotheek

• dep: libgcc1 [x32]

  Pakket niet beschikbaar

  dep: libgcc1 (>= 1:4.1.1) [alpha, ppc64, sparc64]

  dep: libgcc1 (>= 1:4.3) [sh4]

• dep: libgcc2 (>= 4.2.1) [m68k]

  Pakket niet beschikbaar

• dep: libgcc4 (>= 4.1.1) [hppa]

  Pakket niet beschikbaar

• dep: libgomp1 (>= 4.9) [niet m68k, sh4, sparc64]

  GCC OpenMP (GOMP) support library

• dep: libhdf5-7 [x32]

  Pakket niet beschikbaar

• dep: libhdf5-8 [alpha, hppa, ppc64]

  Pakket niet beschikbaar

• dep: libstdc++6 [x32]

  GNU Standard C++ Library v3

  dep: libstdc++6 (>= 13.1) [arm64]

  dep: libstdc++6 (>= 4.4.0) [m68k, sh4, sparc64]

  dep: libstdc++6 (>= 4.8) [hppa]

  dep: libstdc++6 (>= 4.9) [alpha, ppc64]

  dep: libstdc++6 (>= 5.2) [amd64, ppc64el, s390x]

• dep: zlib1g (>= 1:1.2.3.4)

  compressiebibliotheek - programma's

mapsembler2 downloaden

Pakket downloaden voor alle beschikbare platforms

Platform	Versie	Pakketgrootte	Geïnstalleerde grootte	Bestanden
alpha (unofficial port)	2.2.3+dfsg-1	241,2 kB	910,0 kB	[overzicht]
amd64	2.2.4+dfsg1-4	707,5 kB	1.283,0 kB	[overzicht]
arm64	2.2.4+dfsg1-4+b1	690,7 kB	1.443,0 kB	[overzicht]
hppa (unofficial port)	2.2.3+dfsg-1	241,5 kB	803,0 kB	[overzicht]
m68k (unofficial port)	2.1.6+dfsg-1	262,2 kB	453,0 kB	[overzicht]
ppc64 (unofficial port)	2.2.3+dfsg-1	228,6 kB	928,0 kB	[overzicht]
ppc64el	2.2.4+dfsg1-4	722,5 kB	1.571,0 kB	[overzicht]
s390x	2.2.4+dfsg1-4	683,2 kB	1.307,0 kB	[overzicht]
sh4 (unofficial port)	2.1.6+dfsg-1	285,5 kB	469,0 kB	[overzicht]
sparc64 (unofficial port)	2.1.6+dfsg-1	263,1 kB	458,0 kB	[overzicht]
x32 (unofficial port)	2.2.3+dfsg-1	233,7 kB	706,0 kB	[overzicht]