add header

01_settings/readwrite_rapidrun_demultiplexing.py

02_assembly/Snakefile

02_assembly/rules/remove_unaligned.smk

03_demultiplex/Snakefile

03_demultiplex/rules/assign_sequences.smk

03_demultiplex/rules/split_sequences.smk

04_filter_samples/Snakefile

04_filter_samples/rules/clean_pcrerr_samples.smk

04_filter_samples/rules/dereplicate_samples.smk

04_filter_samples/rules/goodlength_samples.smk

04_filter_samples/rules/rm_internal_samples.smk

05_assignment/Snakefile

05_assignment/rules/assign_taxon.smk

05_assignment/rules/dereplicate_runs.smk

05_assignment/rules/rm_attributes.smk

05_assignment/rules/sort_runs.smk

05_assignment/rules/table_runs.smk

main.sh