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Question: Crlmm HumanOmniExpress-24v1 Annotation not available
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gravatar for andrew.j.skelton73
3.4 years ago by
United Kingdom
andrew.j.skelton73310 wrote:

Hi, 

I've got some Illumina HumanOmniExpress-24v1 data, and I was going to use Crlmm to read the IDAT files in and carry out genotyping, but the 24 well version of the chip doesn't seem to be available, I was wondering if there was going to be support for it?

Any suggestions for alternatives would be welcome!

Thanks, 

ADD COMMENTlink modified 5 months ago by lack.justin10 • written 3.4 years ago by andrew.j.skelton73310

I guess an alternative is to split the IDAT files into two sets of 12, as they're essentially the same chip, just 12/24 well versions. Anyone have any experience with this?

ADD REPLYlink written 3.4 years ago by andrew.j.skelton73310
2
gravatar for Matthew Ritchie
3.4 years ago by
Australia
Matthew Ritchie730 wrote:

Hi Andrew,

We don't currently support this platform, but are working towards an approach to handle data from any arbitrary platform without the need for a chip-specific package - we hope to make it available in the next release. Best wishes,

Matt

ADD COMMENTlink written 3.4 years ago by Matthew Ritchie730

Cheers Matt, any idea on the time scale for the next release?

ADD REPLYlink written 3.4 years ago by andrew.j.skelton73310
0
gravatar for lack.justin
5 months ago by
lack.justin10
lack.justin10 wrote:

Has there ever been a solution to this problem? I have Infinium® CoreExome-24 v1.2 BeadChip data that I want to develop an automated workflow for, and there doesn't appear to be an annotation set for this chip. Are we able to provide our own annotation set? If so, are there specific files from the Illumina chip support files? Is there a format guide for the annotation?

Thank you in advance for your help.

Justin

ADD COMMENTlink written 5 months ago by lack.justin10
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