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Combining TSEBRA Output with other Annotations in GFF format #35

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NicMAlexandre opened this issue Aug 21, 2023 · 1 comment
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@NicMAlexandre
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NicMAlexandre commented Aug 21, 2023

Hello,

I am trying to wrap my head around how best to merge these annotations. We have information from EMapper and Interproscan we would like to merge with he TSEBRA output. I am pasting below an example entry for the same gene from each of the GFF files. Any help is greatly appreciated:

Emapper.txt
TSEBRA.txt
InterProScan.txt

@NicMAlexandre
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To generate the input for the Interproscan and Emapper GFF:

agat_sp_extract_sequences.pl -g DHPbraker1+2_combined.gtf -f DHP.FINAL.chrom.fasta -p -o DHP.prot.fasta
cat DHP.prot.fasta | perl -pe 's/*//g' > DHP.prot.noStar.fasta

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