IDBA-Tran is a de novo RNA-seq transcriptome assembler. The IDBA-Tran algorithm uses De Bruijn Graphs, can handle paired-end reads, isoforms, and uses a probabilistic heuristic method to remove incorrect vertices.
Transcriptomics; Gene expression; Gene transcripts
Peng Y, Leung HC, Yiu SM, Lv MJ, Zhu XG, Chin FY "IDBA-tran: a more robust de novo de Bruijn graph assembler for transcriptomes with uneven expression levels." Bioinformatics. 2013 Jul 1;29(13):i326-34. https://doi.org/10.1093/bioinformatics/btt219
PMID: 23813001
PMCID: PMC3694675
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