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KEGGdecoder input formating. #24

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cErikson opened this issue Oct 25, 2020 · 0 comments
Open

KEGGdecoder input formating. #24

cErikson opened this issue Oct 25, 2020 · 0 comments

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@cErikson
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KEGGdecoder requires the following input format. note the underscore between genome id and read id.

genomeId_fastaId \t keggid

Otherwise KEGGdecoder thinks each entry is its own genome, and segfalts. The following code gets the appropriate format

cat GCA_001508995.1_ASM150899v1_protein_kofamscan.txt | sed -ne 's/.*/GCA001508995_&/p' > GCA_001508995.1_ASM150899v1_protein_kofamscan_prefix.txt  c
cat kofamscan_results.txt | sed -ne 's/.*/kofamscan_&/p' > kofamscan_results_prefix.txt 
cat *prefix.txt > kofamscan_res_prefix.txt
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@cErikson