Summarizing .biom table by sample name

This command collapsed replicates in the 18S_chimera .biom table, pooling all reads from the same sample site together:

summarize_otu_by_cat.py --otu_table_fp 18Schimera_openref99_20Oct13_otu_table_mc2_w_tax_metadata.biom --mapping_fp /Users/hollybik/Dropbox/Projects/18S_chimera/18S_chimera_mapping_qiime_format_remGOM_fungi15xR2.txt --mapping_category SampleName --output_fp 18Schimera_openref99_20Oct13_otu_table_mc2_w_tax_SampleName.biom

Note: I had to remove any samples that had zero representation in the .biom table (this included a couple of the GOM fungi replicates)

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