Question

SC3 with latent variable corrected counts

1

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Mark ▴ 10

@mark-11758

Last seen 7.8 years ago

Imperial College London

I was just wondering if it's valid to perform SC3 clustering on latent variable normalised counts obtained for example from RUVSeq's RUVg or similar methods?

Thanks a lot,

Mark

SC3 single cell • 1.5k views

ADD COMMENT • link updated 8.0 years ago by Vladimir Kiselev ▴ 150 • written 8.0 years ago by Mark ▴ 10

score 2 · Accepted Answer · 2016-10-31

2

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Vladimir Kiselev ▴ 150

@vladimir-kiselev-9342

Last seen 5.6 years ago

Sanger Institute, Cambridge, UK

Hi Mark,

Thanks for your question!

Yes, it is valid. SC3 treats RUV normalised counts the same way as counts normalised by any type of the size factor normalisations.

Cheers,

Vladimir

ADD COMMENT • link 8.0 years ago Vladimir Kiselev ▴ 150