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09_GENOME_DEREPLICATION

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eolesin edited this page Jun 8, 2021 · 21 revisions

Run anvi-summarize on the dastool consensus bins to get the genomes out of anvio and into FASTA format.

Rename the bin contigs to include the original sample name in addition to the bin info. Within the ANVI-SUMMARIZE output folder:

for i in `cat AMOR_2020_Good`; 
    do 
    bin_names=$(ls ${i}/bin_by_bin)
    for j in $bin_names; do sed -i "s/>/>${i}_/g" ${i}/bin_by_bin/${j}/${j}-contigs.fa; done
done

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