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heuermh/bwa-cannoli.sh

Created June 27, 2018 21:39
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bwa-cannoli.sh
#!/bin/bash
cannoli-submit \
interleaveFastq \
sample_1.fq \
sample_2.fq \
sample.ifq
cannoli-submit \
bwa \
-index /data/hs38DH.fa \
-use_docker \
# -use_singularity \
sample.ifq \
sample.alignments.adam \
sample
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