Bioconductor Sigcheck

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SigCheck

updated 4.8 years ago by Rory Stark ★ 5.1k • written 4.8 years ago by Lavorgna Giovanni ▴ 80

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SigCheck sigcheck

8.0 years ago Rory Stark ★ 5.1k

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Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by samer • 0

Thank you for your reply, but it is always the same case. Showing a significant p-adj when there isn't a difference between the 2 condition…

Comment: rDGIdb package inconsistency with web interface by christopherjamessteel1990 • 0

That is strange as I only see that previous version message when I go on the https://beta.dgidb.org/api version. I did contact the writer …

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by ATpoint ★ 3.6k

"Raw" counts, so you're plotting un-normalized data, hence plots have no meaning in terms of groupwise comparisons. Use the `normTransform`…

Answer: In DiffBind, dba.blacklist changes the minOverlap parameter by Sam ▴ 10

I have found a workaround : running dba.blacklist **after** running dba.count (while running dba.count with minOverlap=1). ``` dbObj_co…

Comment: Small RNA-seq Analysis DESEQ2 : Unexpected Significance by samer • 0

By applying the log2 transformation to the raw counts of small RNAS AND after adding 1 to each count, the resulting values often approximat…

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Answer: WGCNA documentation not available

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