A porting of the Trinity RNA assembly pipeline, https://trinityrnaseq.github.io, that uses Nextflow to handle the underlying sub-tasks.

This enables additional capabilities to better use HPC resources, such as packing of tasks to fill up nodes and use of node-local disks to improve I/O.

By design, the pipeline separates the workflow logic (main file) and the cluster-specific configuration (config files), improving portability.

Based on a pipeline by Sydney Informatics Hub:

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RNA-RNA interactome analysis using ChiRA tools suite. The aligner used is CLAN.

RNA-RNA interactome analysis using ChiRA tools suite. The aligner used is BWA-MEM.