which file from the Transdecoder.predict to be used for cd-hit input?
Transdecoder.predict makes following files after completion
- transdecoder.assembly.cds
- transdecoder.assembly.pep
- transdecoder.assembly.bed
- transdecoder.assembly.gff3
I want to ask which of this file is to be used with cd-hit for clustering to remove redundant seqs from assembly. if pep file to be used then how to select the relevent seq from the input assembly.
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