Speedseq is great tool and very convenient for our lab as we primarily been using cnvnator and Lumpy/svtyper for structural variations analysis.
I tasted the tool and sometime it was crashing due to limited memory , mostly on cnvnator part, so that brings my two question rather feature request.
Are there any check points , specially before cnvnator step ? , such that it can resume running from cnvnator step.
Is there a way to specify chromosomes for cnvnator step. I see that CNVnator-multi is replaced by traditional version which does have functionality to run separate chromosome using '-chrom' parameter. This could be big time saver especially when one is interested in autosomes only or even with 24 chromosome without the other unscaffolded contigs.
Hello,
Speedseq is great tool and very convenient for our lab as we primarily been using cnvnator and Lumpy/svtyper for structural variations analysis.
I tasted the tool and sometime it was crashing due to limited memory , mostly on cnvnator part, so that brings my two question rather feature request.
Thanks, Nick