[svtoolkit-help] 200 flies

[William G. <W....@su...>]

Hi,

I¹m testing GenomeStrip to run on 230 Drosophila melanogaster females in a
Linux Sun Grid Engine cluster.

My deletion detection pipeline is Preprocess, Disocovery, Genotyper.

The last test run on a 2Mb section of all individuals took 40 minutes. In
the final vcf, generated by the genotyper, there are 362 events, of which
17 are PASS.

My problem is that I don¹t really know how to interpret the output. A
typical genotype entry for a passed deletion is
.:LQ:-0.48,-0.48,-0.48:-0.48,-0.48,-0.48:0 although occasionally there is
a .:LQ:-2.00,-0.31,-0.31:-2.00,-0.31,-0.31:0

I¹m not able to find this info out anywhere else.

Sincerely,

William Gilks


________________________________________

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School of Life Sciences
University of Sussex, United Kingdom
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FAX +44(0)1273 877586
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