介绍

TGS: Third-Generation Single-molecule long reads

A gap-closing software tool that uses error-prone long reads generated by third-generation-sequence techniques (Pacbio, Oxford Nanopore, etc.) or preassembled contigs to fill N-gap in the genome assembly.

  • Both raw reads and pre-error-corrected reads are acceptable as input.
  • If only raw long reads are provided, it polishes raw TGS reads by calling Racon.
  • If additional NGS short reads are available, it polishes raw TGS reads by calling Pilon.

Notice : only fasta format of TGS reads is acceptable.

安装

  1. conda install tgsgapcloser=1.2.1 -c bioconda

运行

参考

  1. https://github.com/BGI-Qingdao/TGS-GapCloser
  2. TGS-GapCloser: A fast and accurate gap closer for large genomes with low coverage of error-prone long reads