Bioconductor No replicates

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862

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methylsig no replicates dmr

6.5 years ago nilaycan • 0

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3.5k

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deseq2 without replicate no replicates

updated 6.7 years ago by Michael Love 43k • written 6.7 years ago by Tony • 0

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11k

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deseq2 no replicates high p-adj values

updated 2.5 years ago by Michael Love 43k • written 7.3 years ago by Mahtetie • 0

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2.2k

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rnaseq edger DGE no replicates

7.5 years ago Stefany Solano • 0

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1.5k

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diffhic estimate dispersion value glm no replicates deseq

updated 7.8 years ago by Aaron Lun ★ 28k • written 7.8 years ago by hwick1 ▴ 20

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ATAC differential binding analysis no replicates DEseq2 chromatin

7.9 years ago • updated 7.8 years ago BioinfGuru ▴ 70

6 results • Page 1 of 1

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Answer: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Following the discussion of this post, the package [gDNAx](https://bioconductor.org/packages/gDNAx) has been fixed in devel and release 1.4…

Answer: Selection of correct coefficients or contrasts in DESeq2 by James W. MacDonald 67k

Using R's model formulation for three-way interactions is probably not the way to go here. Or at least I wouldn't do it that way. An easier…

Comment: How to generate circular cnetplot and color nodes and edges in the same plot ? by Blandine • 0

Thank you so much ! It's working !

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by James W. MacDonald 67k

Yes. If you have the Illumina IDs, then all the annotation data that `cpg.annotate` uses will be based on hg19. It doesn't matter if TCGA l…

Comment: Recount3 data correspond to TCGA data by Leonardo Collado Torres ★ 1.1k

Thanks @fep29! ^^

Votes

Comment: Recount3 data correspond to TCGA data

Answer: DESeq2- merging technical vs biological replicates

Answer: SingleCellExperiment convenience function for metadata+expression?

How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.

Answer: EdgeR Biological CVs

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Popular Question to Robert Castelo ★ 3.4k

Popular Question to Robert Ivanek ▴ 750