Balík: wtdbg2 (2.5-7 a iné)

[ Zdroj: wtdbg2  ]

de novo sequence assembler for long noisy reads

Wtdbg2 is a de novo sequence assembler for long noisy reads produced by PacBio or Oxford Nanopore Technologies (ONT). It assembles raw reads without error correction and then builds the consensus from intermediate assembly output. Wtdbg2 is able to assemble the human and even the 32Gb Axolotl genome at a speed tens of times faster than CANU and FALCON while producing contigs of comparable base accuracy.

During assembly, wtdbg2 chops reads into 1024bp segments, merges similar segments into a vertex and connects vertices based on the segment adjacency on reads. The resulting graph is called fuzzy Bruijn graph (FBG). It is akin to De Bruijn graph but permits mismatches/gaps and keeps read paths when collapsing k-mers. The use of FBG distinguishes wtdbg2 from the majority of long-read assemblers.

Ostatné balíky súvisiace s balíkom wtdbg2

• dep: libc6 (>= 2.29)

  knižnica GNU C - zdieľané knižnice
  tiež virtuálny balík poskytovaný balíkom libc6-udeb

• dep: zlib1g (>= 1:1.2.0)

  komprimačná knižnica - dynamická verzia

• sug: minimap2

  versatile pairwise aligner for genomic and spliced nucleotide sequences

• sug: mummer

  Efficient sequence alignment of full genomes

• sug: perl

  Practical Extraction and Report Language od Larryho Walla

• sug: samtools

  processing sequence alignments in SAM, BAM and CRAM formats

• sug: wtdbg2-examples

  Examples for wtdbg - de novo sequence assembler

Stiahnuť wtdbg2

Stiahnuť pre všetky dostupné architektúry

Architektúra	Verzia	Veľkosť balíka	Nainštalovaná veľkosť	Súbory
amd64	2.5-7+b1	678.4 kB	6,643.0 kB	[zoznam súborov]
arm64	2.5-7+b1	328.2 kB	1,014.0 kB	[zoznam súborov]
armel	2.5-7+b1	345.5 kB	1,184.0 kB	[zoznam súborov]
armhf	2.5-7+b1	355.8 kB	872.0 kB	[zoznam súborov]
i386	2.5-7+b1	866.7 kB	5,501.0 kB	[zoznam súborov]
mips64el	2.5-7+b1	345.5 kB	1,282.0 kB	[zoznam súborov]
mipsel	2.5-7+b1	387.9 kB	1,384.0 kB	[zoznam súborov]
ppc64el	2.5-7+b1	364.4 kB	1,366.0 kB	[zoznam súborov]
s390x	2.5-7+b1	335.9 kB	1,302.0 kB	[zoznam súborov]