#!/bin/bash
#SBATCH -t 4:00:00
#SBATCH --nodes=1 --ntasks-per-node=1
#SBATCH --mem=144g
#SBATCH --export=NONE
#SBATCH --mail-user=alex_labossiere@uri.edu
#SBATCH --mail-type=BEGIN,END,FAIL

module load QIIME2/2024.2

rawdir=/data/mramseylab/16S/proc_reads/2022_AL_SUPP/2022
visdir=/data/mramseylab/16S/proc_reads/2022_AL_SUPP/2022
metadata=/data/mramseylab/16S/metadata/plaque_meta_2.tsv

qiime feature-table summarize \
  --i-table $rawdir/denoise-table-2022-trip.qza \
  --o-visualization $visdir/table-sum-2022-trip.qzv \
  --m-sample-metadata-file $metadata \

qiime feature-table tabulate-seqs \
  --i-data $rawdir/rep-seqs-2022-trip.qza \
  --o-visualization $visdir/rep-seqs-2022.qzv