IDBA-Tran
Idba-tran
http://i.cs.hku.hk/~alse/hkubrg/projects/idba_tran/
iterative De Bruijn Graph De Novo short read assembler for transcriptome
IDBA-Tran is an iterative De Bruijn Graph De Novo short read assembler for transcriptome. It is purely de novo assembler based on only RNA sequencing reads. IDBA-Tran uses local assembly to reconstructing missing k-mers in low-expressed transcripts and then employs progressive cutoff on contigs to separate the graph into components. Each component corresponds to one gene in most cases and contains not many transcripts. A heuristic algorithm based on pair-end reads is then used to find the isoforms.
Licensing
License
Verified by
Verified on
Notes
License
Verified by
Debian: Andreas Tille <tille@debian.org>
Verified on
21 June 2014
Notes
License: gplv2+
Leaders and contributors
Resources and communication
| Audience | Resource type | URI |
|---|---|---|
| Debian (Ref) (R) | https://tracker.debian.org/pkg/idba | |
| Download | https://code.google.com/p/hku-idba/downloads/list |
Software prerequisites
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