transdecoder

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Snakemake workflow to run transdecoder + trinotate

snakemake sqlite blast transcriptome trinity snakemake-workflows hmmscan transdecoder trinotate

This repository contains CWL descriptions of the various tools which will allow you to build workflows for the annotation of transcripts

Workflow for de novo transcriptome assemblies from paired-end illumina reads, annotation and quality checks

Using BLAST and Transdecoder.

bash bioinformatics blast trinity protein-domains hmmscan transdecoder swissprot blastp profile-hmm

Generate a fake chromosome-level GFF for a relative species with only Trinity transcriptome CDS/PEP, using a chromosome-level reference genome

gff3 diamond transcriptome synteny trinity transdecoder mcscanx ortholog pseudo-chromosome

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