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Comment: DiffBind - Retrieving the differentially bound sites - HOW to calculate fold-cha
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Rory Stark
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Are you confident that in the non-control condition there is not a systematic loss of binding levels reflecting a true biological signal? I…
Answer: Handling NA's in Deseq2
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ATpoint
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DESeq2 objects are SummarizedExperiments and these follow standard R rules. If you had an object `dds` with a column `group` then you wo…
Comment: S4Vectors masking utils::findMatches is returning warnings in R 4.3 / Bioconduct
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Marshall
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@[avatar game][1] Thanks for support. [1]: https://avatargame2.com
Answer: Use with_go along with other filters in getBM function
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Mike Smith
★ 6.0k
You hit on the right solution with your final example. Here's a slightly modified version where I've given names to the list elements in `…
Comment: Can VST-transformed community composition data be expressed as relative abundanc
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dwas
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Thank you for your fast and helpful clarifications. I must have understood the pseudo-counts wrong (the video episode CC195 of the Riffomo…
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A: Generating a proper TxDb instance from NCBI GFF Annotations File
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A: Using R package 'limma' on pre-normalized counts and the effect of non-equivalen
Using R package 'limma' on pre-normalized counts and the effect of non-equivalent reads/sample on limma linear model
A: What can I do if I only have TPM but not raw counts data?
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