Software Open Access

TransLiG: a de novo transcriptome assembler that uses line graph iteration

Juntao Liu, Ting Yu, Zengchao Mu, Guojun Li

TransLiG is an efficient de novo trascriptome assembler for RNA-Seq data. It can assemble 
 all transcripts from short reads (single or paired) without using a reference.  
 The software expects as input RNA-Seq reads in fasta or fastq format, and ouput all
 assembled candidate transcripts in fasta format. Briefly, it works in two step: first,
 TransLiG partitions the sequence data into many individual splicing graphs, each capturing 
 the full transcriptional complexity at a given gene or no more than a few genes. Then, 
 TransLiG repetitively phases and contracts paths over the splicing graphs, infering an optimal 
 edge-path-cover for each graph representing the expressed transcripts of this gene locus.

 This software is free to use, modify, redistribute without any restrictions, 
 except including the license provided with the distribution.

Files (2.4 MB)
Name Size
TransLiG_1.0.tar.gz
md5:d8fc52c646603c948474200e9f54db85
2.4 MB Download
80
14
views
downloads
All versions This version
Views 8080
Downloads 1414
Data volume 33.4 MB33.4 MB
Unique views 6868
Unique downloads 1313

Share

Cite as