Bioconductor Bayespeak

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BayesPeak bug

9.2 years ago balwierz ▴ 40

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bayespeak

10.2 years ago Reed ▴ 10

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Chipseq DNAseq ATAC bayespeak narrowpeaks

updated 10.4 years ago by Gordon Smyth 53k • written 10.4 years ago by samuel collombet ▴ 140

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ChIPSeq chipseq BayesPeak ChIPSeq chipseq BayesPeak

13.1 years ago John linux-user ▴ 210

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AnnotationData annotate ChIPpeakAnno BayesPeak AnnotationData annotate ChIPpeakAnno

13.2 years ago Julie Zhu ★ 4.3k

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BayesPeak BayesPeak

14.1 years ago Mary Ellen Fitzpatrick ▴ 20

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ChIPSeq GO BSgenome BSgenome chipseq BayesPeak ChIPSeq GO BSgenome BSgenome chipseq

updated 14.3 years ago by Jonathan Cairns ▴ 130 • written 14.3 years ago by Andreia Fonseca ▴ 810

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BayesPeak BayesPeak

updated 15.0 years ago by Jonathan Cairns ▴ 130 • written 15.0 years ago by Binbin Liu ▴ 30

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BayesPeak BayesPeak

updated 15.4 years ago by Jonathan Cairns ▴ 130 • written 15.4 years ago by Tim Rayner ▴ 270

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Comment: DESeq2 for candidate gene analysis by horrible.junglefowl.xkxi • 0

The free online calculator has become an indispensable tool in our digital world. Its versatility, accessibility, and ease of use make it a…

Comment: DESeq2 for candidate gene analysis by piffelpaff ▴ 10

thank you so much for answering Dr. Love!

Answer: DESeq2 for candidate gene analysis by Michael Love 43k

Your plan 1 is reasonable. Run DESeq2 on the whole dataset to obtain size factors and moderated dispersion estimates and then extract the u…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k

Oh. ``` > z <- read10xCounts(c(tmpdir, tmpdir), mtx.class = "SVT_SparseMatrix", delayed = TRUE) > class(counts(z)) [1] "DelayedMatrix" att…

Comment: Best practice for handling large data (matrix with >2^31-1 non-zero elements) in by James W. MacDonald 68k

That's weird. Using the example data works for me. ``` > example(read10xCounts) rd10xC> # Mocking up some 10X genomics output. rd10xC> ex…

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Answer: DESeq2 for candidate gene analysis

DESeq2 for candidate gene analysis

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Drug datasets for RNA-seq

Comment: Check removeBatchEffect effectiveness

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