Bioconductor Hclust

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1.8k

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dendrogram hclust textanalysis R RStudio

2.2 years ago • updated 2.1 years ago Abby ▴ 10

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879

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deseq2 pca hclust

updated 3.6 years ago by Michael Love 40k • written 3.6 years ago by ag1805x ▴ 80

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1.6k

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hclust hierarchical clustering clustering weight

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by danielle.newby • 0

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2.2k

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pheatmap hclust R dendrogram

6.0 years ago vd4mmind • 0

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1.2k

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WGCNA hclust

6.1 years ago bag59 • 0

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1.4k

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heatmap.2 hclust reorderfun

updated 6.3 years ago by James W. MacDonald 63k • written 6.3 years ago by b.nota ▴ 360

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1.3k

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clustering hclust maSigPro

updated 7.3 years ago by efejiroe • 0 • written 7.8 years ago by dimitri.leonid.lindenwald ▴ 50

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2.1k

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hclust heatmap

8.3 years ago rmgreer • 0

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3.5k

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wgcna dendrogram network hclust

updated 8.7 years ago by Keith Hughitt ▴ 180 • written 8.7 years ago by Jon Bråte ▴ 240

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3.1k

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wgcna hclust plotdendroandcolors dendrogram

updated 8.7 years ago by James W. MacDonald 63k • written 8.7 years ago by Keith Hughitt ▴ 180

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Comment: Error: biomaRt has encountered an unexpected server error. by Mike Smith ★ 6.0k

Unfortunately, the BioMart LDS functionality have been flaky for a while now e.g. https://support.bioconductor.org/p/9143401/ , https:/…

Comment: Use with_go along with other filters in getBM function by Mike Smith ★ 6.0k

Hi @rubbit0, I'm not sure I understand what you're trying to do. Do you have a long list of Ensembl Gene IDs and you're trying to select …

Comment: Adjusting for baseline when having longitudinal data, mixed model and no treat by Anna ▴ 20

Dear Gordon, these are my metadata. As you see some subject are missing for timepoint 1 Subject Timepoint 1 ID1 Baselin…

Comment: Question on constructing design matrix and defining contrasts for analysis by mohammedtoufiq91 ▴ 10

Sure, noted.

Comment: Question on constructing design matrix and defining contrasts for analysis by mohammedtoufiq91 ▴ 10

@gordonsmyth Yes, I realized while re-running through the WGCNA workflow and forget to account for the paired experiment. For general gene …

Votes

Dispersion plot -Interpretation -DESeq2

Answer: Dispersion Estimates and MA plots

DESeq2: When to split multiple group samples for 'more' accurate sizefactors, dispersions etc.

WGCNA coupled with differential expression analysis: question about baseline module detection

WGCNA with paired samples

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