Hello, I am using bwa samse. If a query sequence matches multiple times, this happens:
``` Repetitive hits will be randomly chosen. ``` http://bio-bwa.sourceforge.net/bwa.shtml This means that when I run the same command twice, I will get two different files. Is it possible to run bwa samse so that multiple runs on the same sets of sequences will produce identical files? I imagine this could be achieved by setting the seed of the random number generator. But I can't see an option for that with bwa. This would be useful, because when bwa runs on identical sets of sequences produced identical files, I could get rid of the duplicates and replace them with links. That could potentially save us some disk space. Cheers, Michael. ------------------------------------------------------------------------------ Find and fix application performance issues faster with Applications Manager Applications Manager provides deep performance insights into multiple tiers of your business applications. It resolves application problems quickly and reduces your MTTR. Get your free trial! https://ad.doubleclick.net/ddm/clk/302982198;130105516;z _______________________________________________ Samtools-help mailing list [email protected] https://lists.sourceforge.net/lists/listinfo/samtools-help
