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NS5_Demux.csv is used to map MIDS to sample names and projects.
Nothing below here has been done yet
Splitting to fastq for individuals
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In /project/microbiome/data_queue/seq/NS5/otu, I ran run_slurm_mkotu.pl, which I modified to also pick up the joined reads (in addition the merged reads).
Nothing below here has been done yet
Make coligo table
In /project/microbiome/data_queue/seq/NS5/coligoISD, /project/microbiome/data/seq/NS5/coligoISD, and /project/microbiome/data/seq/NS5/coligoISD, there are 16S and ITS directories for all projects. These contain a file named coligoISDtable.txt with counts of the coligos and the ISD found in the trimmed forward reads, per sample. The file run_slurm_mkcoligoISDtable.pl has the code that passes over all of the projects and uses vsearch for making the table.
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