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Setup
$ source "$TESTDIR"/_setup.sh
Filter using --min-length and --max-length.
$ ${AUGUR} filter \
> --sequence-index "$TESTDIR/../data/sequence_index.tsv" \
> --metadata "$TESTDIR/../data/metadata.tsv" \
> --min-length 10500 \
> --max-length 10700 \
> --output-strains filtered_strains.txt
7 strains were dropped during filtering
1 had no metadata
1 had no sequence data
2 were dropped because they were shorter than the minimum length of 10500bp when only counting standard nucleotide characters A, C, G, or T (case-insensitive)
3 were dropped because they were longer than the maximum length of 10700bp when only counting standard nucleotide characters A, C, G, or T (case-insensitive)
6 strains passed all filters
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