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mxposed/velocyto.sh

Created May 4, 2019 17:16
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velocyto.sh
$ cat velocyto-sc14.sh
#!/bin/bash
#MSUB -A b1042
#MSUB -q genomics
#MSUB -l walltime=10:00:00
#MSUB -N velocyto-sc14
#MSUB -l nodes=1:ppn=4
#MSUB -o velocyto-sc14.out.log
#MSUB -e velocyto-sc14.err.log
# load modules you need to use
module load python/anaconda3.6
module load samtools
# Set your working directory
velocyto run10x /projects/b1038/Pulmonary/sc_data/SC_14 /projects/b1038/Pulmonary/Anno/mm10/Mus_musculus.GRCm38.87.gtf
mv /projects/b1038/Pulmonary/sc_data/SC_14/velocyto/* /projects/b1038/Pulmonary/nmarkov/
ls /projects/b1038/Pulmonary/nmarkov/
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