Bioconductor RCy3

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RCy3 Cytoscape Rgraphviz GOstats

5.0 years ago Matthew Thornton ▴ 350

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rcy3

updated 3.4 years ago by alex.pico ▴ 20 • written 4.3 years ago by hanna226613 ▴ 10

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RCy3 Cytohubba

updated 3 months ago by alex.pico ▴ 20 • written 4 months ago by jzhan067 ▴ 10

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Cytoscape RCy3 RCy

updated 3 months ago by alex.pico ▴ 20 • written 4 months ago by David R ▴ 90

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Cytoscape RCy3 Networkvisualization WGCNA

11 months ago Ortega-C ▴ 10

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RCy3

updated 15 months ago by alex.pico ▴ 20 • written 15 months ago by adR ▴ 30

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Network RCy3

updated 3 months ago by alex.pico ▴ 20 • written 4 months ago by David R ▴ 90

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GEOquery CancerData limma RCy3 CancerInSilico

updated 2.5 years ago by Steve Lianoglou ★ 13k • written 2.5 years ago by Caitlin ▴ 50

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Cytoscape Pathways Wikipathways rWikiPathways RCy3

3.4 years ago Emilia ▴ 30

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735

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RCy3 Cytoscape R Newick Bioconductor

updated 3.4 years ago by alex.pico ▴ 20 • written 3.8 years ago by ellisjc • 0

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Answer: Get genomic coordinates of CpGs sites (chromosomes, genomic position) by James W. MacDonald 65k

You don't say what array that is, so I will guess. ``` > library(IlluminaHumanMethylationEPICanno.ilm10b4.hg19) > Locations DataFrame…

Answer: SGSeq: moving toward diffex from SGSeq analysis by Leonard Goldstein ▴ 200

`vid` and `eid` are unique identifiers for splice variants and splicing events respectively. They are analogous to exon bin and gene identi…

Comment: Help with error using camera() in limma by Chris • 0

Thanks James! I fixed the error. I try gene symbol instead of entrez and it worked.

Comment: limma for gene expression analysis with big and unbalanced sample size by XW • 0

Could you explain more about the comment "there are no problems with using limma for unbalanced data sets" ? thanks.

Comment: Limma, eBayes different sample size of groups and adjustment by XW • 0

Could you explain more about how the analysis self-correct the different sample sizes when calling DEGs in limma? Thanks

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SPIA plotP giving error

Answer: Fold change calculation in Diffbind vs. DESEQ2?

C: How to establish a subset from TxDb.Hsapiens.UCSC.hg38.knownGene DB

C: Extremely big genes in annotation TxDb packages

Make custom Txdb class objects from Txdb

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