Bioconductor Mds

Showing : mds • reset

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1.2k

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MDS RNA-Seq

updated 2.3 years ago by Gordon Smyth 51k • written 2.3 years ago by Pei • 0

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1.6k

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plotMDS PCA RNASeq MDS

updated 2.6 years ago by Gordon Smyth 51k • written 2.6 years ago by Raito92 ▴ 60

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4.5k

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edgeR plotmds differential gene expression MDS mdsplot

updated 5.8 years ago by Gordon Smyth 51k • written 5.8 years ago by ilovesuperheroes1993 • 0

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3.1k

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edger DEG mds plot

7.2 years ago baus87 • 0

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1.6k

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limma methylation R covariate MDS

updated 7.5 years ago by Aaron Lun ★ 28k • written 7.5 years ago by RC • 0

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1.8k

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differential gene expression cmdscale mds

8.5 years ago Adam • 0

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1.4k

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champ MDS

8.9 years ago Eric Smith • 0

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2.9k

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MDS edger

updated 8.9 years ago by Gordon Smyth 51k • written 9.9 years ago by tobler • 0

8 results • Page 1 of 1

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Comment: Differential Expression Analysis with unbalanced batches without replication bet by Thili • 0

Thank you for your reply. I currently have batch-corrected data processed with scvi-tools (specifically, totalvi) and have followed the sam…

Comment: Problem at champ.load by andrew.gibbons • 0

I'd love to know if anyone has a workaround too. I've tried rolling back ChAMP and R to the previous versions that others have said work wi…

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][…

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