# To run on interactive queue 

bds -s local -reportHtml -reportName /home/ay64w/log/"singleCell.$(date +%Y-%m-%d_%H-%M-%S)" $HOME/Project/AtacSeq/inst/bin/bds/singleCell.bds -inputGTF /project/umw_nathan_lawson/Annotation/GRCz11/refseq_GRCz11/GRCz11refSeqUcsc.fixed2.gtf -outGTF /project/umw_nathan_lawson/Annotation/GRCz11/refseq_GRCz11/GRCz11refSeqUcsc.reformat.gtf -inputfasta /project/umw_nathan_lawson/Annotation/GRCz11/refseq_GRCz11/danRer11.primary.fa

# To submit job on large queue 
bsub < ~/bsubscript/cellranger.bsub