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broadinstitute / wot

A software package for analyzing snapshots of developmental processes
https://broadinstitute.github.io/wot/
BSD 3-Clause "New" or "Revised" License
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Using wot on scATAC data? #78

Open smanne07 opened 4 years ago

smanne07 commented 4 years ago

Hi, Thank you for this wonderful tool.

Can this be applied on scATACseq data?If wot can be applied,are there any changes or assumptions we have to make to use this as this method relies on growth rates estimated from genesets.

Thank you in advance Sasi

geoffschieb commented 4 years ago

Dear Sasi,

Yes, it can be applied to ATAC data, but this is not yet built in. You will have to change the "cost function", which determines the cost matrix.

I would be happy to discuss details if helpful.

Best, Geoff

On Wed, Feb 12, 2020 at 7:58 AM SasiM notifications@github.com wrote:

Hi, Thank you for this wonderful tool.

Can this be applied on scATACseq data?If wot can be applied,are there any changes or assumptions we have make to use this?

Thank you in advance Sasi

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smanne07 commented 4 years ago

Hi Geoff, We would like to apply it to scATAC data,can you provide details of how the cost function need to be modified?

Best regards Sasi