Bioconductor Blocking

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921

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voom blocking limma

updated 13 months ago by Gordon Smyth 51k • written 13 months ago by Gerhard Thallinger ▴ 180

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871

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edgeR blocking

updated 3.5 years ago by Yunshun Chen ▴ 870 • written 3.5 years ago by Molly • 0

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1.1k

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diffbind blocking model

updated 4.0 years ago by Rory Stark ★ 5.2k • written 5.1 years ago by melnuesch ▴ 10

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1.6k

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edger limma paired blocking ruvseq

updated 4.5 years ago by Gordon Smyth 51k • written 4.5 years ago by ScA • 0

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2.6k

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limma repeated measurements blocking random effects

updated 4.7 years ago by Gordon Smyth 51k • written 4.7 years ago by Jane ▴ 10

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4.0k

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limma edger blocking paired samples

updated 6.0 years ago by Gordon Smyth 51k • written 6.0 years ago by anou ▴ 10

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938

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diffbind differential binding analysis blocking

updated 6.8 years ago by Rory Stark ★ 5.2k • written 6.9 years ago by zhangly811 • 0

7 results • Page 1 of 1

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Answer: Is it possible to parallelise saveHDF5SummarizedExperiment by Hervé Pagès 16k

Hi Stefano, Unfortunately HDF5 doesn't support concurrent writing so parallelising is not an option. A few things that maybe could help: …

Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by James W. MacDonald 67k

It's a simple two-liner in [getsrc.sh][1] ``` awk -F'\t' 'BEGIN {OFS=FS} {if($3 != $11 && $11 != "-") $3 = $11; print $0}' gene_info > tmp…

Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by Guido Hooiveld ★ 4.1k

Thanks for changing this! Just to confirm I understood it correctly: the `Symbol` will (still) be used, and will be replaced by `Symbol fro…

Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db? by James W. MacDonald 67k

OK, there are 157 MT genes in maybe 6 species for which the symbols are not correct, and I added code to swap the 'Symbol from nomenclature…

Comment: Tximport with RSEM error by Michael Love 42k

Would you post a new issue with example code and maybe what the files look like?

Votes

Comment: incomplete official symbol mitochondrial genes in org.Hs.eg.db?

Answer: Supercells with Basilisk fails for dtype('float64') to dtype('int64') conversion

A: GOseq analysis with only upregulated or downregulated genes

Answer: Properly constructing a hypergeometric test

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