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rcy3
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how to call an app from Cytoscape using R?
RCy3
updated 13 days ago by
alex.pico
• 0 • written 13 days ago by
adR
▴ 20
2
votes
3
replies
547
views
Aggregating genes from multiple GSE's, ranking them, then building a PPI network.
GEOquery
CancerData
limma
RCy3
CancerInSilico
updated 14 months ago by
Steve Lianoglou
13k • written 14 months ago by
Caitlin
▴ 50
1
vote
2
replies
509
views
RCy3 Cytoscape package question
rcy3
updated 2.1 years ago by
alex.pico
• 0 • written 3.1 years ago by
hanna226613
▴ 10
1
vote
3
replies
666
views
loadTableData function from RCy3 returns "Failed to load data: Provided key columns do not contain any matches"
Cytoscape
Pathways
Wikipathways
rWikiPathways
RCy3
2.2 years ago • updated 2.1 years ago
Emilia
▴ 30
0
votes
1
reply
447
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3
Cytoscape
R
Newick
Bioconductor
updated 2.1 years ago by
alex.pico
• 0 • written 2.5 years ago by
ellisjc
• 0
3
votes
4
replies
852
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3
Cytoscape
Rgraphviz
GOstats
3.7 years ago
Matthew Thornton
▴ 350
6 results • Page
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Comment: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m32) is not TRUE
by
Hervé Pagès
16k
See https://github.com/Bioconductor/GenomeInfoDb/issues/82#issuecomment-1409482932
Comment: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m32) is not TRUE
by
Hervé Pagès
16k
See https://github.com/Bioconductor/GenomeInfoDb/issues/82#issuecomment-1409482932
Comment: Sva and batch effect
by
Gordon Smyth
47k
(+1). I find that ComBat tends to introduce spurious differential expression so, you think there's a batch effect affecting the variances a…
Comment: Advice for the analysis of microarray data with limma
by
Gordon Smyth
47k
You mean references on orthogonal polynomials? Polynomial approximation is a classic topic in mathematics and statistics and there are many…
Comment: Limma-voom with inverse probability weights (similar to sample weights)
by
Gordon Smyth
47k
The potential problem isn't with empirical Bayes with the fact that the variance estimate from your method A linear model might not be mean…
Votes
Answer: Sva and batch effect
Answer: AnnotationForge::makeOrgPackage "argument is missing, with no default" Errors
Comment: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m32) is not TRUE
Comment: Error in .order_seqlevels(chrom_sizes[, "chrom"]) : !anyNA(m32) is not TRUE
Answer: Limma-voom with inverse probability weights
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