Bioconductor RCy3

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igraph KEGGgraph RCy3 GraphNEL

17 months ago • updated 16 months ago Arindam ▴ 80

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RCy3

21 months ago Matthew Thornton ▴ 390

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Cytoscape RCy3 RCy

updated 2.1 years ago by alex.pico ▴ 30 • written 2.2 years ago by David R ▴ 90

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Network RCy3

updated 2.1 years ago by alex.pico ▴ 30 • written 2.2 years ago by David R ▴ 90

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RCy3 Cytohubba

updated 2.1 years ago by alex.pico ▴ 30 • written 2.1 years ago by jzhan067 ▴ 10

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Cytoscape RCy3 Networkvisualization WGCNA

2.8 years ago Ortega-C ▴ 10

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RCy3

updated 3.1 years ago by alex.pico ▴ 30 • written 3.1 years ago by adR ▴ 40

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GEOquery CancerData limma RCy3 CancerInSilico

updated 4.2 years ago by Steve Lianoglou ★ 13k • written 4.3 years ago by Caitlin ▴ 50

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rcy3

updated 5.2 years ago by alex.pico ▴ 30 • written 6.1 years ago by hanna226613 ▴ 10

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Cytoscape Pathways Wikipathways rWikiPathways RCy3

5.2 years ago Emilia ▴ 40

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RCy3 Cytoscape R Newick Bioconductor

updated 5.2 years ago by alex.pico ▴ 30 • written 5.6 years ago by ellisjc • 0

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RCy3 Cytoscape Rgraphviz GOstats

6.8 years ago Matthew Thornton ▴ 390

12 results • Page 1 of 1

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Answer: Should I use beta1 from limpa::dpc() or limpa::dpcCN(), if they differ? by Gordon Smyth 53k

I tend to use dpcCN(), because it more robust than dpc() to experiments with lots of samples and big differences between samples. You coul…

Answer: Which preprocessing steps are needed before running limpa? by Gordon Smyth 53k

Please see the example limpa analyses given at <http://github.com/smythlab/limpa>, especially the kidney cancer case study. limpa does not…

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name by Korneel • 0

Thanks for the quick reply! If I understand correctly, I think if I keep track of the full lineage, I shouldn't have any risk of collapsin…

Comment: Pathway abundance data from Curatedmetagenomics by yesquokkan • 0

Hello, I was also wondering about the same issue. Did you figure it out?

Comment: [DESeq2] Changing dispersion estimates between runs of DESeq2 by colinmccornack • 0

FWIW: This seems to be due to architectural differences between two compute nodes I was running on, specifically with the DESeq2:::fitNbino…

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Answer: Subsetting data verses contrasts [DESeq2]?

A: WGCNA differences two groups 10 replicates each group

A: WGCNA sample size minimum: why?

Comment: Why does IDTaxa trainingSet for SILVA contain "_2" suffixes in the taxonomy name

Answer: Can you colour dendrogram branch clusters in pheatmap?

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Popular Question to Peter Hickey ▴ 760