JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts then searches for gene fusions. This package contains the wrappers jaffa-direct, jaffa-assembly, and jaffa-hybrid. You can pass the "refSeq" parameter in the environment variables JAFFA_REF_BASE. Otherwise, pass any paramters to the wrappers as you would to the bpipe JAFFA_{method} call in the manual.


Info: This package contains files in non-standard labels.

conda install

  • linux-64  v1.09
  • osx-64  v1.09
To install this package with conda run one of the following:
conda install -c bioconda jaffa
conda install -c bioconda/label/cf201901 jaffa


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