Bioconductor Rrbs

Showing : rrbs • reset

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1.3k

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edgeR model-selection RRBS mixture-experiment

3.8 years ago ingerslev • 0

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1.1k

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MethylCC RRBS cord blood

4.5 years ago weichen-cls • 0

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934

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Biseq Methylation DMP DMR RRBS

4.5 years ago i.s.castanho • 0

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783

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biseq betaRegression RRBS Methylation

4.9 years ago i.s.castanho • 0

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2.5k

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edgeR rrbs

updated 6.1 years ago by Gordon Smyth 52k • written 6.1 years ago by ingerslev • 0

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2.8k

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methykit rrbs

updated 6.7 years ago by Mike Smith ★ 6.6k • written 6.7 years ago by bekah ▴ 40

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1.8k

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edgeR methyation RRBS

updated 7.0 years ago by Gordon Smyth 52k • written 7.0 years ago by osa.zuta ▴ 40

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1.3k

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biseq RRBS betaregression

7.8 years ago l.eijssen • 0

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2.2k

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sva RRBS

updated 7.9 years ago by Jeff Leek ▴ 650 • written 7.9 years ago by mrodrigues.fernanda ▴ 10

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2.0k

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rrbs batch effect methylation sva

updated 8.3 years ago by dashbrook1 • 0 • written 9.5 years ago by GFM ▴ 20

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1.7k

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limma rrbs bsseq

updated 8.6 years ago by Aaron Lun ★ 28k • written 8.6 years ago by nhejazi • 0

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2.3k

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biseq RRBS SAAP-BS coverage

9.8 years ago • updated 9.7 years ago maria.maqueda • 0

12 results • Page 1 of 1

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Answer: I am having issues with bowtie2_build by James W. MacDonald 67k

Is proof.fa an actual FASTA file? Have you tried using the demo data that comes with the package? See the [vignette under Build Bowtie Inde…

Answer: DEG analysis across multiple timepoints, treatments and tissues by Michael Love 43k

Yes, if you think the entire time course can be modified by tissue effects then you would include another set of interaction terms. I re…

Comment: How to visualize these pathways using pathview by Guido Hooiveld ★ 4.1k

FYI: a similar, if not identical issue has been reported before (`pathview` has problems visualizing some pathways, but not all). You likel…

Comment: Why select top highly expressed genes based on normalized counts, but then plot by Quang NN ▴ 10

I see. Thank you ATpoint!

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by Prakash Sah • 0

Thanks James!

Votes

Answer: Unable to install nloptr

Answer: ensembldb for Homo Sapiens organism containing superfluous SYMBOL genes?

C: How does edgeR cpm function calculate log(CPM) values?

Answer: Selection of correct coefficients or contrasts in DESeq2

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Popular Question to bastien_chassagnol • 0