ingap-cdg

ingap-cdg is a software tool to construct full-length, non-redundant coding sequences (CDs) from unassembled transcriptomes. The ingap-cdg algorithm uses a codon-based de Bruijn graph and a machine learning-based methods.

Topic

Data visualisation;Genomics;Gene and protein families

Detail

  • Operation: De Bruijn graph

  • Software interface: Command-line user interface

  • Language: C++

  • License: CC-BY-4.0

  • Cost: Free

  • Version name: 1.2

  • Credit: The Strategic Priority Research Program of the Chinese Academy of Sciences, the National Natural Science Foundation of China, the National Key R&D Program.

  • Input: -

  • Output: -

  • Contact: Fangqing Zhao zhfq@biols.ac.cn

  • Collection: -

  • Maturity: -

Publications

  • A novel codon-based de Bruijn graph algorithm for gene construction from unassembled transcriptomes.
  • Peng G, Ji P, Zhao F. A novel codon-based de Bruijn graph algorithm for gene construction from unassembled transcriptomes. Genome Biol. 2016 Nov 17;17(1):232. doi: 10.1186/s13059-016-1094-x. PMID: 27855707; PMCID: PMC5114782.
  • https://doi.org/10.1186/s13059-016-1094-x
  • PMID: 27855707
  • PMC: PMC5114782

Download and documentation

< Back to DB search