trinity

Trinity allows for the efficient and robust de novo reconstruction of transcriptomes from RNA-sequencing data. It requires you to define the sequence file type, left and right read files, number of CPU cores and max memory. It outputs to a Trinity.fasta file. Note that the inchworm stage is capped at 6 threads.

tip

Note several other tools load with this module and can be seen running the following command: report_subtools.sh trinity

For additional information and examples please see the documentation

ml biocontainers trinity
Trinity --seqType fa --left left_1.fa --right right_2.fa --CPU 12 --max_memory 10G

Parallel Capabilities: Single core default, Multithreading options supported.