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Create a Graph w/ Only the Genes Interaction
EnrichedPathways GeneInteractionGraph graph
4 months ago Antonio • 0
0
votes
3
replies
1.3k
views
Representation of self-loops and the calculation of degrees
graph
updated 14 months ago by 6.7k • written 23 months ago by • 0
2
votes
4
replies
5.1k
views
Unable to upload an App in shinyapps.io with bioconductor packages
shinny graph RBGL
updated 19 months ago by ▴ 10 • written 3.7 years ago by • 0
0
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1
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1.1k
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maSigPro see.genes expression profile graphs. Change color and label text size
maSigPro graph
updated 3.9 years ago by ▴ 90 • written 4.0 years ago by • 0
3
votes
3
replies
2.0k
views
Can't install graph package
graph
updated 4.6 years ago by 25k • written 4.6 years ago by ▴ 10
1
vote
2
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1.1k
views
Library for Node Influence package
Graph gene regulatory network node influence gene ranking
updated 4.9 years ago by ★ 4.0k • written 5.0 years ago by ▴ 50
0
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0
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1.1k
views
igraph PoTRA error
graph pathways igraph
6.7 years ago genomic8328 ▴ 10
1
vote
4
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2.4k
views
How do I convert kegg info on drug to a format allowing me to calculate similarities?
keggrest chemminer fmcsr graph
written 6.7 years ago by • 0
2
votes
1
reply
2.1k
views
Pathview graph with multiple states/samples or time series
Pathways graph Pathways graph
updated 6.8 years ago by • 0 • written 11.1 years ago by ★ 1.6k
1
vote
1
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1.3k
views
How to get the list of the components of all containers from the active RedeR session?
reder graph
updated 7.1 years ago by ▴ 10 • written 7.1 years ago by ▴ 10
0
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1
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1.2k
views
CRISPRseek How to get a correct result of searchHits2 ?
crisprseek graph
updated 7.3 years ago by ★ 4.3k • written 7.3 years ago by • 0
0
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1
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1.3k
views
Visualizing Linear Model Coefficients in R
R deseq2 graph linear model
updated 7.4 years ago by 42k • written 7.4 years ago by • 0
2
votes
3
replies
3.8k
views
How to convert graphNEL object into Adjacency Matrix?
graph kegggraph xml
updated 7.6 years ago by ★ 3.4k • written 7.6 years ago by • 0
2
votes
2
replies
2.6k
views
Best practices for converting adj matrix -> graphNEL
graph adjacency matrix
7.9 years ago bryon ▴ 10
1
vote
1
reply
1.2k
views
Fastest way to get the distances between pairs of graph nodes
graph rgbl dag
updated 8.0 years ago by ★ 13k • written 8.0 years ago by ▴ 110
0
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1
reply
1.3k
views
ChIPseeker plotAvgProf2: order of panels
graph
updated 8.1 years ago by ★ 1.2k • written 8.1 years ago by ▴ 30
0
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1
reply
2.3k
views
Gviz Sashimi Plot height/colour/count
graph gviz
updated 8.2 years ago by ▴ 750 • written 8.5 years ago by ▴ 10
0
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1
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1.2k
views
plot pdf error
graph
updated 8.6 years ago by ★ 1.0k • written 8.6 years ago by • 0
3
votes
2
replies
2.8k
views
Finding nearest neighbors of given hub gene in a co-expression network module
wgcna rbgl graph coexpression hub genes
updated 8.6 years ago by ★ 3.0k • written 8.6 years ago by ▴ 150
1
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1
reply
1.6k
views
Rgraphviz and margins
graph Rgraphviz graph Rgraphviz
updated 8.8 years ago by • 0 • written 13.4 years ago by ▴ 80
0
votes
2
replies
2.1k
views
cummRbund MDSplot error
software error graph R cummerbund
updated 8.9 years ago by • 0 • written 9.0 years ago by • 0
2
votes
2
replies
2.0k
views
Ploting with NA values in Gviz (generic function from plot)
Gviz Plot NA graph Job
updated 9.3 years ago by 67k • written 9.3 years ago by ▴ 40
0
votes
1
reply
1.3k
views
Graph isomorphism in Rcytoscape
graph isomorphism in Rcytoscape
updated 9.4 years ago by ▴ 760 • written 9.4 years ago by • 0
0
votes
1
reply
2.1k
views
Graph viewer for Reactome Pathways
bioconductor package reactome graph
updated 9.4 years ago by ★ 2.1k • written 9.4 years ago by ▴ 10
0
votes
5
replies
2.2k
views
R plot error
r bioconductor graph plot data representation in graphical forms
9.4 years ago megha.24may • 0
0
votes
2
replies
2.1k
views
How to specifiy colors for polygon links when using circos function of OmicCircos package
graph omiccircos
updated 9.7 years ago by ▴ 50 • written 9.7 years ago by • 0
0
votes
4
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4.0k
views
R graphs: all paths lengths between two nodes in a directed graph
graph graph
updated 9.8 years ago by • 0 • written 15.6 years ago by ▴ 20
2
votes
2
replies
2.3k
views
GO offspring consistency
annotation GO graph gene ontology
updated 9.9 years ago by 1.6k • written 10.0 years ago by • 0
0
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3
replies
1.8k
views
generating graph with different rown ames and column names
graph rgraphviz
updated 10.0 years ago by 16k • written 10.0 years ago by • 0
0
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4
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2.6k
views
Error for plotDEXSeq and warning for estimateDispersions
graph DEXSeq
updated 10.1 years ago by ★ 1.9k • written 10.1 years ago by ▴ 20
0
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1
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1.7k
views
Problem in K- means clustering
hgu133plus2 graph hgu133plus2 graph
updated 10.2 years ago by ▴ 390 • written 10.2 years ago by ▴ 10
0
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0
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1.2k
views
bug in graph::removeEdge() on UGs with graphBAM objects
graph graph
10.3 years ago Robert Castelo ★ 3.4k
0
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1
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1.4k
views
updating edge visualization rules of an existing graph in RedeR
graph RedeR graph RedeR
updated 10.3 years ago by ▴ 10 • written 10.3 years ago by ▴ 200
0
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1
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1.4k
views
Sciplot: Increasing the width of bargraph and decreasing the sapce b/n groups
graph graph
updated 10.5 years ago by 67k • written 10.5 years ago by ▴ 130
0
votes
5
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3.8k
views
Gviz AnnotationTrack - Consistent y-scales
Coverage Annotation graph Gviz Coverage Annotation graph Gviz
updated 10.6 years ago by ▴ 130 • written 10.6 years ago by ▴ 350
0
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0
replies
1.4k
views
Rgraphviz compilation error
graph Rgraphviz PROcess graph Rgraphviz PROcess
10.6 years ago Kasper Daniel Hansen ★ 6.5k
0
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0
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1.5k
views
Plotting per base coverage from genomecoveragebed utility
graph graph
10.6 years ago gv ▴ 40
0
votes
9
replies
3.2k
views
Rgraphviz compilation error
graph graph
updated 10.6 years ago by ▴ 70 • written 10.6 years ago by ★ 13k
0
votes
5
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1.9k
views
problem with makeGOGraph function
Yeast graph GOstats Yeast graph GOstats
updated 10.6 years ago by 67k • written 10.7 years ago by ★ 13k
0
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0
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1.9k
views
edgeR: regarding Poisson distribution and goodness of
Normalization graph edgeR Normalization graph edgeR
10.7 years ago Yunshun Chen ▴ 870
0
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0
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1.4k
views
edgeR: regarding Poisson distribution and goodness of fit graph
Normalization graph edgeR Normalization graph edgeR
10.8 years ago Guest User ★ 13k
0
votes
1
reply
1.6k
views
how to determine what kind of dispersion to use
graph edgeR graph edgeR
updated 10.8 years ago by ★ 7.9k • written 10.8 years ago by ★ 13k
0
votes
5
replies
5.0k
views
Problem with exporting graph from plotPCA() in a DESeq2 function
graph DESeq2 graph DESeq2
updated 10.8 years ago by 42k • written 10.8 years ago by ★ 13k
0
votes
2
replies
2.2k
views
What RNA-Seq expression estimates to use for plotting to show voom/limma Differential expression
Visualization graph limma Visualization graph limma
updated 10.8 years ago by 51k • written 10.8 years ago by ▴ 30
0
votes
1
reply
1.3k
views
FLowClust/FLowCore
graph flowCore graph flowCore
updated 10.8 years ago by ★ 1.3k • written 10.8 years ago by ★ 13k
0
votes
0
replies
1.8k
views
pathview vectorized output?
Pathways graph pathview Pathways graph pathview
10.8 years ago Luo Weijun ★ 1.6k
0
votes
1
reply
1.5k
views
Statistics questions regarding the use of Ambion ExFold ERCC standards with Affmetrix ST arrays.
Normalization vsn graph Normalization vsn graph
updated 10.8 years ago by 67k • written 10.8 years ago by ▴ 380
0
votes
4
replies
2.3k
views
RCytoscape: object 'graph' not found error
graph RCytoscape graph RCytoscape
updated 10.9 years ago by ▴ 470 • written 10.9 years ago by ▴ 210
0
votes
1
reply
1.4k
views
bug in graph::addNode() w/ graph::edgeData()
graph graph
updated 10.9 years ago by ★ 3.4k • written 10.9 years ago by ▴ 750
0
votes
2
replies
1.6k
views
bug in graph::addNode() w/ graph::edgeData()
graph graph
updated 11.0 years ago by ▴ 750 • written 11.0 years ago by ★ 3.4k
50 results • Page 1 of 1
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Comment: [How to construct a model.matrix ] by kyj2226 • 0
Thanks to you, I learn a lot. Many thanks, Yujin.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by rania.alanany • 0
thank you for your advice, I posted separate post.
Comment: How to extract phastcons score for all protein coding genes and lncRNAs using Ge by Robert Castelo ★ 3.4k
Hi, this is a long comment thread on 4-year old post, please open a new post with you question. To increase the odds of getting useful answ…
Answer: DESeq2 rerun returns different results by ATpoint ★ 4.5k
DESeq2 is deterministic if you use same input, code and software versions. Make sure to version-control your environment by at least tracki…
Answer: [How to construct a model.matrix ] by Gordon Smyth 51k
> Initially, I simply used > `lm(Epigenetic_age ~ Age_group + Age + Sex + PC1 + PC2 + PC3 + PC4 + PC5 + B + CD4T + CD8T + Mono + NK + Neutr…
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Answer: [How to construct a model.matrix ]
C: DESeq2 baseMean values for each sample
C: DESeq2 baseMean values for each sample
Comment: ColData and ERROR: rows did not converge in beta, labelled in mcols(object)$beta
A: Some questions for remove batch effect by using mnnCorrect
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