Package: wtdbg2 (2.5-8)
Links for wtdbg2
Trisquel Resources:
Download Source Package wtdbg2:
Maintainer:
Original Maintainers:
- Debian Med Packaging Team (Mail Archive)
- Andreas Tille
External Resources:
- Homepage [github.com]
Similar packages:
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.
Other Packages Related to wtdbg2
|
|
|
-
- dep: libc6 (>= 2.34)
- GNU C Library: Shared libraries
also a virtual package provided by libc6-udeb
-
- dep: zlib1g (>= 1:1.2.0)
- compression library - runtime
-
- sug: minimap2
- versatile pairwise aligner for genomic and spliced nucleotide sequences
-
- sug: mummer
- Efficient sequence alignment of full genomes
-
- sug: perl
- Larry Wall's Practical Extraction and Report Language
-
- sug: samtools
- processing sequence alignments in SAM, BAM and CRAM formats
-
- sug: wtdbg2-examples
- Examples for wtdbg - de novo sequence assembler
Download wtdbg2
| Architecture | Package Size | Installed Size | Files |
|---|---|---|---|
| amd64 | 770.4 kB | 6486 kB | [list of files] |
| arm64 | 369.5 kB | 973 kB | [list of files] |
| armhf | 394.3 kB | 883 kB | [list of files] |
| ppc64el | 409.3 kB | 1365 kB | [list of files] |