Closed mpoelchau closed 4 years ago
bbnorm.sh in1=read1.fq in2=read2.fq out1=normalized1.fq out2=normalized2.fq target=100
if this works, then it will probably replace the post-mapping downsampling component.
open questions:
Do "in1=read1.fq" and "in2=read2.fq" mean the output fastq files from the step trimmomatic? Is this normalizing step before the aligning step?
Yes!
bbnorm.sh in1=read1.fq in2=read2.fq out1=normalized1.fq out2=normalized2.fq target=100
if this works, then it will probably replace the post-mapping downsampling component.
open questions: