User: barati

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barati0
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Posts by barati

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Using ATACseq CPM for clustering samples
... Hi everyone, I'm a newbie in the field, so I have a few super naive questions. I have a set of bulk ATACseq samples and I want to do clustering on them. 1. Is using log CPM ok for clustering samples? (do I need to do quantile normalization? is there a better way to cluster samples based on ATAC s ...
normalization atac-seq clustering written 5 weeks ago by barati0
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Comment: C: "[E::bgzf_read] Read block operation failed" error - possible truncation/corrupt
... They've all been downloaded from TCGA with a lot of post-processing that worked on them. I'm trying to use diffbind for some count matrices, so I'm super confused about why they're showing up as truncated now :/ ...
written 5 weeks ago by barati0
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Comment: C: "[E::bgzf_read] Read block operation failed" error - possible truncation/corrupt
... Would you happen to have an update on this? Running into the same problem and the bam files themself seem fine. ...
written 6 weeks ago by barati0

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