Bioconductor DDS

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480

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DESeqDataSetFromMatrix dds DESeq2

updated 14 months ago by James W. MacDonald 67k • written 14 months ago by naomi.croft • 0

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599

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Celegans DESeq2 dds Errorinseq_len(length(idx)-1)

updated 24 months ago by James W. MacDonald 67k • written 24 months ago by Enzo.Scifo • 0

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1.3k

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deseq2 cooks distance dds

updated 6.2 years ago by Michael Love 42k • written 6.2 years ago by ipso • 0

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1.2k

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deseq2 dds RPKM

updated 6.5 years ago by Michael Love 42k • written 6.5 years ago by harry.horsnell.17 • 0

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2.4k

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deseq2 rld pheatmap dds

updated 7.0 years ago by Michael Love 42k • written 9.1 years ago by rahel14350 ▴ 10

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5.5k

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deseq2 DDS

updated 7.1 years ago by Michael Love 42k • written 7.1 years ago by rrcutler ▴ 70

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5.1k

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Deseq2 dds confounders

updated 8.9 years ago by Michael Love 42k • written 8.9 years ago by colaneri ▴ 30

7 results • Page 1 of 1

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Comment: GOstats kegg analysis in wheat - help - none of the objects in the first column by GV Yoshikawa • 0

Thank you for the reply. I tried swapping columns before asking, it made no difference. head(keggframeData) path_id kegg…

Answer: Differential Expression Analysis with unbalanced batches without replication bet by Gordon Smyth 51k

> Is there an alternative model or approach in tools like edgeR, limma-voom, or DESeq2 or any other that can handle confounded batch effect…

Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0

I just found this workaround: httr::set_config(config(ssl_verifypeer = FALSE, ssl_verifyhost = FALSE)) at [this Stack Overflow link][…

Comment: Problem at champ.load by icecreamlover • 0

Hello! Were you able to figure this out? I am running into the same error!

Comment: ChAMP - obtaining beta values using EPICv2 annotation by icecreamlover • 0

Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…

Votes

A: Up/Down Regulated GeneList from edgeR and R

A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis

Answer: Combining RNAseq and microarray data using edgeR/limma-voom

Answer: How do I merge a list of GRanges?

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Teacher to Gordon Smyth 51k

Popular Question to Guido Hooiveld ★ 4.1k