Clinker is a bioinformatics pipeline that generates a superTranscriptome from popular fusion finder outputs (JAFFA, tophatFusion, SOAP, deFUSE, Pizzly, etc), that can be then be either viewed in genome viewers such as IGV or through the included plotting feature developed with GViz.
You need a conda-compatible package manager
(currently either micromamba, mamba, or conda)
and the Bioconda channel already activated (see set-up-channels).
While any of above package managers is fine, it is currently recommended to use either
micromamba or mamba (see here for installation instructions).
We will show all commands using mamba below, but the arguments are the same for the two
Given that you already have a conda environment in which you want to have this package, install with: