User: znl207

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znl20710
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Posts by znl207

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Pindel output to BED file
... Hi! I am looking at raw pindel output files and wondering if there is a way to change them into genotyped bed-type files. the main question is how does one genotype (decide if each individual does or doesn't have the structural variant) based on pindel's 6 [number description per sample][1] when ...
sv bed format cnv pindel written 7 months ago by znl20710 • updated 7 months ago by Pierre Lindenbaum121k
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Comment: C: Pindel -x option
... Hi, Your response doesn't address the question of setting min / max for identifying insertions, deletions, and duplications. (-n is inserted seq *in* deletions not the deletion as a whole.) It seems like this is simply not an option in pindel. ...
written 7 months ago by znl20710
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Pindel -x option
... I want to find out if it is possible to filter the size of structural variants using the -x options. In the Pindel documentation -x indicates the maximum size of structural variations to be detected (1=128, 2=512, 3=2,048, 4=8,092, 5=32,368, 6=129,472, 7=517,888, 8=2,071,552) Say I wanted only v ...
cnv pindel deletion duplication written 8 months ago by znl20710 • updated 8 months ago by goodez460

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