Bioconductor Blocking

Showing : blocking • reset

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1.0k

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voom blocking limma

updated 18 months ago by Gordon Smyth 52k • written 18 months ago by Gerhard Thallinger ▴ 180

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963

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edgeR blocking

updated 3.9 years ago by Yunshun Chen ▴ 900 • written 3.9 years ago by Molly • 0

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1.2k

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diffbind blocking model

updated 4.4 years ago by Rory Stark ★ 5.2k • written 5.5 years ago by melnuesch ▴ 10

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1.8k

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edger limma paired blocking ruvseq

updated 4.9 years ago by Gordon Smyth 52k • written 4.9 years ago by ScA • 0

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3.0k

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limma repeated measurements blocking random effects

updated 5.1 years ago by Gordon Smyth 52k • written 5.1 years ago by Jane ▴ 10

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4.3k

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limma edger blocking paired samples

updated 6.4 years ago by Gordon Smyth 52k • written 6.4 years ago by anou ▴ 10

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1.0k

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diffbind differential binding analysis blocking

updated 7.2 years ago by Rory Stark ★ 5.2k • written 7.3 years ago by zhangly811 • 0

7 results • Page 1 of 1

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Answer: fast apply on RleList by story.benjamin ▴ 20

solved with viewApply (code is simplified below) + map reduce on chrs test.split <- split(test.gr,seqnames(test.gr)) final.st…

Comment: fast apply on RleList by story.benjamin ▴ 20

Hi James, thanks for the reply. I ultimately figured it out ... viewApply showed a massive speed increase for me (see other answer) - I was…

Answer: fast apply on RleList by James W. MacDonald 68k

There is already a 'mean' function that will dispatch on an `RleList` that you can use. I don't have a long `RleList` in hand to test it on…

Answer: Custom CDF creation for HTA 2.0 array using GTF annotation by James W. MacDonald 68k

It doesn't appear that Manhong Dai is working at UM any longer, and the webpage appears to have fallen into disrepair (for example, the lin…

Comment: how to use `arrayWeightsQuick()`? by matthew • 0

In the specific use-case I have in mind, `expression` is a simple `matrix` of log2 gene expression per sample, no missing values.

Votes

annotation EpicV2

Answer: fast apply on RleList

Answer: BiocParallel_1.40.1.tar.gz not available

Modelling gene program dynamics across time with {lemur}

A: DESeq2 one group vs multiple groups comparison in presence of batch effect

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Popular Question to Ariel Chernomoretz ▴ 170