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.
To install this package, run one of the following:
Summary
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.
Last Updated
Jul 23, 2022 at 11:29
License
GPL-3.0-or-later
Total Downloads
21.7K
Supported Platforms
Unsupported Platforms