TransDecoder.Predict - Online in the Cloud

PROGRAM:

NAME

Transdecoder - Transcriptome Protein Prediction

USAGE

Required:

-t <string> transcripts.fasta

Common options:

--retain_long_orfs <int> retain all ORFs found that are equal or longer than these many nucleotides even if no other evidence
marks it as coding (default: 900 bp => 300aa)

--retain_pfam_hits <string> /path/to/pfam_db.hmm to search
using hmmscan (which should be accessible via your PATH setting)

--retain_blastp_hits <string>

Advanced options

--train <string> FASTA file with ORFs to train Markov Mod for protein identification; otherwise
longest non-redundant ORFs used

-T <int> If no --train, top longest ORFs to train Markov Model (hexamer stats) (default: 500)

2015-12-28 TRANSDECODER.PREDICT(1)

Use TransDecoder.Predict online using onworks.net services