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Confusing numbering in ALTD/ALTA events #119

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UBrau opened this issue May 15, 2024 · 2 comments
Open

Confusing numbering in ALTD/ALTA events #119

UBrau opened this issue May 15, 2024 · 2 comments

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@UBrau
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UBrau commented May 15, 2024

Hi there,

I just noticed now that (at least in the human database), there are ALTD and ALTA events in which the sub-numbering is inconsistent, for example:

HsaALTD0002958-4/5
HsaALTD0002958-1/4
HsaALTD0002958-2/4
HsaALTD0002958-3/4
HsaALTD0002958-4/4

It looks like perhaps 4/5 was added later, but this makes the numbering for these events problematic for downstream applications. This is in the current version.

Best regards,
Ulrich

@mirimia
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mirimia commented May 16, 2024

Thanks, Ulrich. It seems like a weird bug in the assignment of IDs from previous version (hg19), possibly due to the liftOver step during vast-tools construction. I'll look into it.

M

@UBrau
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UBrau commented May 16, 2024

Thanks!
I found 38 such events (where 'event' is the group of alternative sites belonging together) in the hg38 annotation and 17 in mm10.

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