User: wamiqsaifi

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wamiqsaifi0
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Posts by wamiqsaifi

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Comment: C: Obtaining clean data after adjusting for batch effects using SVA
... Hi, I have the exact same question. Any updates on this? Thanks. ...
written 6 months ago by wamiqsaifi0
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Comment: C: Taking surrogate variable into account before running PCA
... Thanks! That helps. ...
written 15 months ago by wamiqsaifi0
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Comment: C: Taking surrogate variable into account before running PCA
... Thanks, But do you know the reason why we shouldn't use the cleaned data for differential expression but can use it for visualisations? ...
written 15 months ago by wamiqsaifi0
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Taking surrogate variable into account before running PCA
... I ran SVA to get surrogate variables. I want to visualise my data taking into consideration the surrogate variables. I came to know tha modifying the original expression matrix is not a good idea (https://www.biostars.org/p/121489/). How can I go about doing this? ...
sva svaseq written 15 months ago by wamiqsaifi0 • updated 15 months ago by Guido Hooiveld2.3k

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