Duplicate sequences in the _decont.fasta

[sivasubramanics]

Dear team,

It's great tool with lots of potential, keeping the pan-transcriptome concept is coming of age. I was trying the pipeline, and after the completion, I could see some sequences are duplicated in the _decont.fasta output.

Could you please provide some clarification of this scenario?

Thanks,

Siva

[Lafond-LapalmeJ]

Are you talking about duplicate sequence or duplicate sequence name ?
Are you using the AST parameters ?

In the test on my side there is no duplicated sequences.
The _decont.fasta file is only a merging of all 'good' clusters. Each sequence is only in a single cluster for each clustering level so there is no possible duplicates.

[isovaline2230]

I've encountered the same issue. Somehow sequences with the same name and content arrived at *_decont.fasta (2~3 duplicates depending on the case).