Hello,
CalculateHsMetrics requires target and bait files in picard interval list
format. This file format requires information about the strand. At present
Illumina does not provide explicit strand information for targets and probes
for Nextera Rapid Exome kit. So I tried CalculateHsMetrics with all
features set to "+",or to "-" strand, or random allocation of +/- strand to
each feature. The results are identical. Is it what is expected? How
CalculateHsMetrics uses strand information from targets and baits files?
Illumina says that their probes are designed against the coding strand.
Assuming the gene is mapped on "positive" strand. What strand should I
assign to the probe and to the target when I generate the picard interval
list file?
Thank you
Alexey
------------------------------------------------------------------------------
Want fast and easy access to all the code in your enterprise? Index and
search up to 200,000 lines of code with a free copy of Black Duck®
Code Sight™ - the same software that powers the world's largest code
search on Ohloh, the Black Duck Open Hub! Try it now.
http://p.sf.net/sfu/bds
_______________________________________________
Samtools-help mailing list
[email protected]
https://lists.sourceforge.net/lists/listinfo/samtools-help
