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

We present TransLiG, a new de novo transcriptome assembler, which is able to integrate the sequence depth and pair-end information into the assembling procedure by phasing paths and iteratively constructing line graphs starting from splicing graphs. TransLiG is shown to be significantly superior to...

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Detalles Bibliográficos
Autores principales: Liu, Juntao, Yu, Ting, Mu, Zengchao, Li, Guojun
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2019
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6480747/
https://www.ncbi.nlm.nih.gov/pubmed/31014374
http://dx.doi.org/10.1186/s13059-019-1690-7
Descripción
Sumario:We present TransLiG, a new de novo transcriptome assembler, which is able to integrate the sequence depth and pair-end information into the assembling procedure by phasing paths and iteratively constructing line graphs starting from splicing graphs. TransLiG is shown to be significantly superior to all the salient de novo assemblers in both accuracy and computing resources when tested on artificial and real RNA-seq data. TransLiG is freely available at https://sourceforge.net/projects/transcriptomeassembly/files/. ELECTRONIC SUPPLEMENTARY MATERIAL: The online version of this article (10.1186/s13059-019-1690-7) contains supplementary material, which is available to authorized users.

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