Bioconductor DMR

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3.5k

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bsseq dmr ttest pvalue

updated 8.2 years ago by James W. MacDonald 65k • written 8.2 years ago by enricoferrero ▴ 660

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1.1k

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BiSeq DMR

updated 3.9 years ago by James W. MacDonald 65k • written 3.9 years ago by akhaira • 0

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4.1k

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bumphunter DMR DMR analysis minfi bioconductor

updated 7.3 years ago by rafa ▴ 60 • written 7.3 years ago by chelsey.ju • 0

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899

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bumphunter DMR methylation minfi

4.2 years ago i.s.brorson • 0

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1.4k

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DMR Methylation R Gviz

updated 5 months ago by Robert Ivanek ▴ 730 • written 3.0 years ago by ltzhou • 0

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1.5k

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dmrseq dmr dmrs bisulfite methylation

updated 6.2 years ago by keegan ▴ 60 • written 6.2 years ago by l.kremer • 0

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2.5k

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dmr methylation deseq2 bsseq biseq

updated 8.5 years ago by Kasper Daniel Hansen ★ 6.5k • written 8.5 years ago by enricoferrero ▴ 660

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1.2k

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illumina methylationepic 450k limma minfi dmr analysis dmr

updated 7.1 years ago by Aaron Lun ★ 28k • written 7.1 years ago by Ellen O • 0

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1.4k

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bumphunter DMR doparallel multicore

updated 9 months ago by Alessandro • 0 • written 6.0 years ago by arce.domingo.1407 • 0

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1.6k

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ChAMP DMR champ.DMR

5.5 years ago yuabrahamliu • 0

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845

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DMR bumphunter EPIC chip

4.2 years ago i.s.brorson • 0

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1.5k

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dmrcate dmr analysis dmr

updated 7.2 years ago by Tim Peters ▴ 170 • written 7.2 years ago by alexandria.andrayas ▴ 10

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516

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edgeR DMR

updated 15 months ago by Michael Love 41k • written 15 months ago by Fiona • 0

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793

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ChAMP DMR

updated 3.9 years ago by Yuan Tian ▴ 280 • written 3.9 years ago by olive8306 • 0

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722

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BiSeq testClusters error dmr

3.8 years ago akhaira • 0

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1.8k

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dmr MethylationArrayData DMRcatedata

updated 3.5 years ago by James W. MacDonald 65k • written 3.5 years ago by Julie • 0

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743

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Biseq Methylation DMP DMR RRBS

3.8 years ago i.s.castanho • 0

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1.3k

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ChAMP minfi DMR dmr analysis lasso

8.5 years ago AST ▴ 60

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1.6k

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methylation linear model dmr bsseq biseq

8.4 years ago enricoferrero ▴ 660

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701

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methylsig no replicates dmr

5.8 years ago nilaycan • 0

20 results • Page 1 of 1

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Comment: DESeq2 output used for PCA plot on R studio by swbarnes2 ★ 1.3k

You didn't generate it with an experiment, you made it up: Your PCA doesn't look like a good RNASeq experiment, because it's not.

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2) by swbarnes2 ★ 1.3k

Your contrast is comparing LGR5 to Homeostasis. The bottom 2 are fine, it's the top one that is wrong. Are you sure this step isn't misla…

Comment: get BM error by James W. MacDonald 65k

I believe you need NCBI Gene IDs for KEGG, in which case you may need to map. The three genes you have shown here don't map, and of those t…

Comment: get BM error by Fara • 0

Thank you for your response. The primary reason for translating Ensembl IDs into Entrez Gene IDs is to perform KEGG (Kyoto Encyclopedia of…

Comment: Error for AnnotationForge makeOrgPackageFromNCBI function by James W. MacDonald 65k

That's weird. I don't have any problem at all generating the `OrgDb` on my box. How big is the gene2pubmed.gz file? I get this: ``` gzip -…

Votes

Answer: get BM error

Answer: Use of negative binomial model for exponential decay rate estimation using DESeq

Comment: Different Shrunk Log2FC according with reference

Reproducibility issue with scran together with lapply and BiocParallel

C: SGSeq: moving toward diffex from SGSeq analysis

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