Program | Parameters |
---|---|
dwgsim | -C coverage level -H -e 0.0-0.005 -R 0.0 -1 read length -2 0 -y 0.0 |
bowtie2 | -x chr20 -U input fastq -S |
SCALCE | input fastq -T 1 -A -n library -o output prefix |
quip (default) | -o=quip -i=sam input sam |
quip (reference) | -o=quip -r ref fa -i=sam input sam |
fastqz (default) | c input fastq output prefix |
fastqz (reference) | c input fastq output prefix r packed ref file |
BRC | rec load bf -err rate 0 -e 0 -i 4 reads file packed ref file |