Trinotate

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Description

Trinotate is a comprehensive annotation suite designed for automatic functional annotation of transcriptomes, particularly de novo assembled transcriptomes, from model or non-model organisms. Trinotate makes use of a number of different well referenced methods for functional annotation including homology search to known sequence data (NCBI-BLAST), protein domain identification (HMMER/PFAM), protein signal prediction (singalP/tmHMM), and comparison to currently curated annotation databases (EMBL Uniprot eggNOG/GO Pathways databases). All functional annotation data derived from the analysis of transcripts is integrated into a SQLite database which allows fast efficient searching for terms with specific qualities related to a desired scientific hypothesis or a means to create a whole annotation report for a transcriptome.

License

GPL, see https://github.com/Trinotate/Trinotate/blob/master/LICENSE.txt

Usage

module avail trinotate/ # list available modules
module load trinotate   # load (default) module

Build_Trinotate_Boilerplate_SQLite_db.pl
Trinotate -help
signalp -h
tmhmm
TransDecoder.Predict -h
TransDecoder.LongOrfs -h

Documentation

https://github.com/Trinotate/Trinotate.github.io/wiki/Software-installation-and-data-required

Homepage

https://trinotate.github.io