Entering edit mode
4.0 years ago
emma.a
▴
130
Hi,
I have a Whole Exome Sequencing baits design of 84Mb.
Why I need to create an access file (access.hg38.bed) if I already have the bait file?
When I run target command
cnvkit.py target --annotate ${flat_file} --split ${baits_file} -o "hg38_baits_annot_split.bed"
the design now is 81Mb and not any more 84Mb, why?
When I run the autobin command
cnvkit.py autobin *.bam --annotate ${flat_file} -t ${baits_file} -g access.hg38.bed
I have the output
Depth Bin size
Target: 64.095 1560
Antitarget: 1.665 60046
In the above cnvkit.py target command I have to add the -a option with the value of 1560 ? or keep the deafult value off 266 considering that is a WES?
Many thanks