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07_BINNING

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eolesin edited this page Mar 24, 2021 · 3 revisions 
for SET in `cat set.txt`; 
    do anvi-cluster-contigs -p 07_MERGED_PROFILES/$SET-MERGED-PROFILE/PROFILE.db \
        -c 04_CONTIGS/$SET-CONTIGS.db -C $SET --driver concoct \
        --just-do-it --num-threads 40; 
done

In 2020 Dahle group sent 60 samples for sequencing from various chimneys across the AMOR. The wiki here is to share the pipeline I used to process this dataset. The intent is to be specific about all steps involved, and to provide other lab members with this information so that they do not have to repeat the same time-consuming processes. By using my Git page, there is an added benefit of accountability and having someone to email if something doesn't work for you. :)

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