Showing : graph • reset
0
votes
3
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979
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Representation of self-loops and the calculation of degrees
graph
updated 7 months ago by 6.7k • written 16 months ago by • 0
2
votes
4
replies
4.6k
views
Unable to upload an App in shinyapps.io with bioconductor packages
shinny graph RBGL
updated 13 months ago by ▴ 10 • written 3.2 years ago by • 0
0
votes
1
reply
953
views
maSigPro see.genes expression profile graphs. Change color and label text size
maSigPro graph
updated 3.4 years ago by ▴ 90 • written 3.4 years ago by • 0
3
votes
3
replies
1.7k
views
Can't install graph package
graph
updated 4.0 years ago by 25k • written 4.0 years ago by ▴ 10
1
vote
2
replies
940
views
Library for Node Influence package
Graph gene regulatory network node influence gene ranking
updated 4.4 years ago by ★ 3.9k • written 4.4 years ago by ▴ 50
0
votes
0
replies
984
views
igraph PoTRA error
graph pathways igraph
6.1 years ago genomic8328 ▴ 10
1
vote
4
replies
2.1k
views
How do I convert kegg info on drug to a format allowing me to calculate similarities?
keggrest chemminer fmcsr graph
written 6.1 years ago by • 0
2
votes
1
reply
1.9k
views
Pathview graph with multiple states/samples or time series
Pathways graph Pathways graph
updated 6.2 years ago by • 0 • written 10.6 years ago by ★ 1.6k
1
vote
1
reply
1.1k
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How to get the list of the components of all containers from the active RedeR session?
reder graph
updated 6.5 years ago by ▴ 10 • written 6.6 years ago by ▴ 10
0
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1
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1.1k
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CRISPRseek How to get a correct result of searchHits2 ?
crisprseek graph
updated 6.8 years ago by ★ 4.3k • written 6.8 years ago by • 0
0
votes
1
reply
1.2k
views
Visualizing Linear Model Coefficients in R
R deseq2 graph linear model
updated 6.9 years ago by 41k • written 6.9 years ago by • 0
2
votes
3
replies
3.4k
views
How to convert graphNEL object into Adjacency Matrix?
graph kegggraph xml
updated 7.0 years ago by ★ 3.3k • written 7.0 years ago by • 0
2
votes
2
replies
2.3k
views
Best practices for converting adj matrix -> graphNEL
graph adjacency matrix
7.4 years ago bryon ▴ 10
1
vote
1
reply
1.1k
views
Fastest way to get the distances between pairs of graph nodes
graph rgbl dag
updated 7.4 years ago by ★ 13k • written 7.4 years ago by ▴ 110
0
votes
1
reply
1.1k
views
ChIPseeker plotAvgProf2: order of panels
graph
updated 7.6 years ago by ★ 1.2k • written 7.6 years ago by ▴ 30
0
votes
1
reply
2.1k
views
Gviz Sashimi Plot height/colour/count
graph gviz
updated 7.6 years ago by ▴ 730 • written 7.9 years ago by ▴ 10
0
votes
1
reply
1.1k
views
plot pdf error
graph
updated 8.1 years ago by ★ 1.0k • written 8.1 years ago by • 0
3
votes
2
replies
2.5k
views
Finding nearest neighbors of given hub gene in a co-expression network module
wgcna rbgl graph coexpression hub genes
updated 8.1 years ago by ★ 3.0k • written 8.1 years ago by ▴ 150
1
vote
1
reply
1.4k
views
Rgraphviz and margins
graph Rgraphviz graph Rgraphviz
updated 8.3 years ago by • 0 • written 12.8 years ago by ▴ 80
0
votes
2
replies
1.9k
views
cummRbund MDSplot error
software error graph R cummerbund
updated 8.4 years ago by • 0 • written 8.4 years ago by • 0
2
votes
2
replies
1.8k
views
Ploting with NA values in Gviz (generic function from plot)
Gviz Plot NA graph Job
updated 8.7 years ago by 65k • written 8.7 years ago by ▴ 40
0
votes
1
reply
1.1k
views
Graph isomorphism in Rcytoscape
graph isomorphism in Rcytoscape
updated 8.8 years ago by ▴ 760 • written 8.8 years ago by • 0
0
votes
1
reply
2.0k
views
Graph viewer for Reactome Pathways
bioconductor package reactome graph
updated 8.9 years ago by ★ 2.0k • written 8.9 years ago by ▴ 10
0
votes
5
replies
2.0k
views
R plot error
r bioconductor graph plot data representation in graphical forms
8.9 years ago megha.24may • 0
0
votes
2
replies
1.9k
views
How to specifiy colors for polygon links when using circos function of OmicCircos package
graph omiccircos
updated 9.2 years ago by ▴ 50 • written 9.2 years ago by • 0
0
votes
4
replies
3.7k
views
R graphs: all paths lengths between two nodes in a directed graph
graph graph
updated 9.2 years ago by • 0 • written 15.0 years ago by ▴ 20
2
votes
2
replies
2.1k
views
GO offspring consistency
annotation GO graph gene ontology
updated 9.4 years ago by 1.6k • written 9.4 years ago by • 0
0
votes
3
replies
1.6k
views
generating graph with different rown ames and column names
graph rgraphviz
updated 9.5 years ago by 16k • written 9.5 years ago by • 0
0
votes
4
replies
2.3k
views
Error for plotDEXSeq and warning for estimateDispersions
graph DEXSeq
updated 9.6 years ago by ★ 1.9k • written 9.6 years ago by ▴ 20
0
votes
1
reply
1.6k
views
Problem in K- means clustering
hgu133plus2 graph hgu133plus2 graph
updated 9.7 years ago by ▴ 390 • written 9.7 years ago by ▴ 10
0
votes
0
replies
1.1k
views
bug in graph::removeEdge() on UGs with graphBAM objects
graph graph
9.7 years ago Robert Castelo ★ 3.3k
0
votes
1
reply
1.3k
views
updating edge visualization rules of an existing graph in RedeR
graph RedeR graph RedeR
updated 9.7 years ago by ▴ 10 • written 9.7 years ago by ▴ 200
0
votes
1
reply
1.3k
views
Sciplot: Increasing the width of bargraph and decreasing the sapce b/n groups
graph graph
updated 10.0 years ago by 65k • written 10.0 years ago by ▴ 130
0
votes
5
replies
3.5k
views
Gviz AnnotationTrack - Consistent y-scales
Coverage Annotation graph Gviz Coverage Annotation graph Gviz
updated 10.0 years ago by ▴ 130 • written 10.0 years ago by ▴ 350
0
votes
0
replies
1.3k
views
Rgraphviz compilation error
graph Rgraphviz PROcess graph Rgraphviz PROcess
10.0 years ago Kasper Daniel Hansen ★ 6.5k
0
votes
0
replies
1.4k
views
Plotting per base coverage from genomecoveragebed utility
graph graph
10.0 years ago gv ▴ 40
0
votes
9
replies
2.9k
views
Rgraphviz compilation error
graph graph
updated 10.0 years ago by ▴ 70 • written 10.0 years ago by ★ 13k
0
votes
5
replies
1.7k
views
problem with makeGOGraph function
Yeast graph GOstats Yeast graph GOstats
updated 10.1 years ago by 65k • written 10.1 years ago by ★ 13k
0
votes
0
replies
1.8k
views
edgeR: regarding Poisson distribution and goodness of
Normalization graph edgeR Normalization graph edgeR
10.2 years ago Yunshun Chen ▴ 840
0
votes
0
replies
1.3k
views
edgeR: regarding Poisson distribution and goodness of fit graph
Normalization graph edgeR Normalization graph edgeR
10.2 years ago Guest User ★ 13k
0
votes
1
reply
1.4k
views
how to determine what kind of dispersion to use
graph edgeR graph edgeR
updated 10.2 years ago by ★ 7.9k • written 10.2 years ago by ★ 13k
0
votes
5
replies
4.7k
views
Problem with exporting graph from plotPCA() in a DESeq2 function
graph DESeq2 graph DESeq2
updated 10.2 years ago by 41k • written 10.2 years ago by ★ 13k
0
votes
2
replies
2.1k
views
What RNA-Seq expression estimates to use for plotting to show voom/limma Differential expression
Visualization graph limma Visualization graph limma
updated 10.2 years ago by 50k • written 10.2 years ago by ▴ 30
0
votes
1
reply
1.1k
views
FLowClust/FLowCore
graph flowCore graph flowCore
updated 10.3 years ago by ★ 1.3k • written 10.3 years ago by ★ 13k
0
votes
0
replies
1.6k
views
pathview vectorized output?
Pathways graph pathview Pathways graph pathview
10.3 years ago Luo Weijun ★ 1.6k
0
votes
1
reply
1.3k
views
Statistics questions regarding the use of Ambion ExFold ERCC standards with Affmetrix ST arrays.
Normalization vsn graph Normalization vsn graph
updated 10.3 years ago by 65k • written 10.3 years ago by ▴ 350
0
votes
4
replies
2.0k
views
RCytoscape: object 'graph' not found error
graph RCytoscape graph RCytoscape
updated 10.3 years ago by ▴ 470 • written 10.3 years ago by ▴ 210
0
votes
1
reply
1.3k
views
bug in graph::addNode() w/ graph::edgeData()
graph graph
updated 10.4 years ago by ★ 3.3k • written 10.4 years ago by ▴ 750
0
votes
2
replies
1.4k
views
bug in graph::addNode() w/ graph::edgeData()
graph graph
updated 10.5 years ago by ▴ 750 • written 10.5 years ago by ★ 3.3k
0
votes
2
replies
2.8k
views
pathview -- ID Problem?
graph pathview graph pathview
updated 10.5 years ago by ▴ 40 • written 10.5 years ago by ★ 1.6k
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Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10
Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k
Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…
Answer: ATACseq merge peaks by ATpoint ★ 4.0k
That depends on your analysis. Typically, for differential analysis (and convenience) you would produce a single set of peaks (e.g. by merg…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by camp ▴ 10
Yes, @atpoint is correct. decontX decontaminated counts are not integers due to the way the variation inference algorithm works, but you ca…
Comment: Deseq2. decontXcounts not integers. Useful alternative? by ATpoint ★ 4.0k
I do not know this decontamination tool you use but generally: If these counts are basically "corrected" raw counts in the sense that they'…
Votes
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)
biomaRt error: database disk image is malformed
Comment: biomaRt : No lock file for BiocFileCache
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