De novo RNA-Seq Assembly Pipeline

Short read RNA-Seq de novo assembly is a well established method to study transcription of organisms lacking a reference genome sequence. Available software packages such as Trinity and Oases have proven to be able to build high quality contigs from short reads. But there is still room for improvement on different points such as:

DRAP includes three modules:

Last release
Version 1.92 (2019-05)
  • External tools compatibility: TransDecoder-v5.0, Trinity-v2.8.4.
  • Add option --assemblies to runMeta to perform meta-assembly directly from fasta files.
  • Add SLURM scheduler compatibility.
  • Provide a patch to reduce TransRate memory requirement.
  • Fix various bugs.
  • Update Docker image.
Cabau C, EscudiƩ F, Djari A, Guiguen Y, Bobe J, Klopp C. (2017)
Compacting and correcting Trinity and Oases RNA-Seq de novo assemblies. PeerJ 5:e2988.
GNU GPLv3 (details)