Bioconductor GPos

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findOverlaps GPos GenomicRanges subsetByOverlaps

updated 2.3 years ago by James W. MacDonald 65k • written 2.3 years ago by Robert ▴ 10

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GenomicRanges unique GPos

2.8 years ago • updated 2.6 years ago maltethodberg ▴ 180

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706

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GenomicRanges GPos

4.0 years ago Charles Plessy ▴ 180

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genomicranges granges gpos

updated 4.9 years ago by Hervé Pagès 16k • written 5.6 years ago by maltethodberg ▴ 180

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1000

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genomicranges gpos granges

updated 5.6 years ago by Hervé Pagès 16k • written 5.6 years ago by maltethodberg ▴ 180

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1.1k

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software error snplocs gpos

updated 5.9 years ago by Hervé Pagès 16k • written 6.0 years ago by j.abbott • 0

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genomicranges gpos

updated 6.3 years ago by Hervé Pagès 16k • written 6.3 years ago by maltethodberg ▴ 180

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783

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genomicranges gpos

6.3 years ago maltethodberg ▴ 180

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Answer: More regions in union when increasing DBA$config$mergeOverlap by Rory Stark ★ 5.2k

I think the documentation is out of sync with the code. Positive values represent gaps between intervals and negative values represent how …

Comment: log2FoldChange value is way too different when compared with counts(dds) by Michael Love 41k

But just to be clear, this is not the same as regressing out batch from the VST (approx log transformed): ``` limma::removeBatchEffect(cou…

Comment: log2FoldChange value is way too different when compared with counts(dds) by HAK • 0

Thank you for the explanation, probably my brain just needed to accumulate enough info to understand what you are saying, but I finally got…

Answer: Getting Error in hclust(d, method = method): NA/NaN/Inf in foreign function call by ATpoint ★ 4.1k

Here the error probably means that you habe genes where expression scross all samples is the same. Rowscaling is value minus mean divided b…

Comment: Store output of matchPWM() by James W. MacDonald 65k

Here's a self contained reproducible example, using part of the example in `?matchPWM` ``` > library(Biostrings) > data(HNF4alpha) > libr…

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Answer: DEseq2 coefficient

SPIA plotP giving error

Answer: Fold change calculation in Diffbind vs. DESEQ2?

C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB

C: Extremely big genes in annotation TxDb packages

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Scholar to Rory Stark ★ 5.2k

Popular Question to tangming2005 ▴ 190