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141

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Modifying Edge Weights in WGCNA

wgcna network igraph R written 5 weeks ago by shahroze786 • 0 • updated 4 weeks ago by Biostar ♦♦ 20

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119

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igraph PoTRA error

igraph potra written 8 weeks ago by plink_9857 • 40 • updated 8 weeks ago by genomax ♦ 47k

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182

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Direct networks into communities in igraph

R igraph written 4 months ago by cahidora • 0

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287

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Filling expr matrix for igraph

R igraph matrix written 6 months ago by Spacebio • 180 • updated 6 months ago by Michael Dondrup ♦ 44k

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362

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Set multiple attributes to one node in R

R igraph written 6 months ago by Vania • 10 • updated 6 months ago by Jean-Karim Heriche ♦ 15k

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286

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6 follow

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Set multiple attributes to a single node in R

R attributes igraph written 6 months ago by Spacebio • 180 • updated 6 months ago by Selenocysteine • 460

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1.1k

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11 follow

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Tutorial: Graph visualization with igraph in R

network igraph R visualization graph tutorial written 13 months ago by Jean-Karim Heriche ♦ 15k

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649

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Keep the KEGG coordinates while passing KEGG pathway (graphNEL) to igraph

R kegg igraph written 20 months ago by saamar.rajput • 10 • updated 19 months ago by Biostar ♦♦ 20

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557

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KEGG graph not completely connected

R igraph kegg written 20 months ago by saamar.rajput • 10 • updated 19 months ago by Biostar ♦♦ 20

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795

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How to plot Motifs in igraph?

ppi igraph motifs written 23 months ago by Saeed Rahmani • 10

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582

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Extract Graph Structure from WikiPathways into R igraph?

R wikipathways igraph written 23 months ago by areyoujokingme • 60

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1.6k

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How to study interaction between a set of specified nodes using 'igraph' package when the network is quite dense?

R network analysis igraph written 3.1 years ago by ishanee.india • 30 • updated 3.1 years ago by raunakms • 950

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2.4k

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How to compute a node similarity matrix for two graphs?

R igraph graphalignment written 3.1 years ago by ishanee.india • 30 • updated 3.1 years ago by raunakms • 950

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4.6k

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Creating subgraph using igraph

R igraph subnetworks written 4.0 years ago by Vinay • 30 • updated 3.9 years ago by Gian • 350

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Recent Replies

C: Normalization amplicon data using mean depth and coverage by Kevin Blighe ♦ 19k
Working with the data should not be difficult, if not just a little unconventional. To help other...
C: Large data set visualisation by Kevin Blighe ♦ 19k
Can you give a sample of the data that you've got? What about CIRCOS? - here's a simple example s...
A: stringtie merged gtf doesn't give any gene expression columns by Kevin Blighe ♦ 19k
Please take a look at my previous answer here: https://www.biostars.org/p/292200/ Both my answer...
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Well, perhaps we can do this here. In which cancer are you particularly interested? I am now plan...
C: How to get million target snps info(ie. chromosome, location) in a easy way? by xiaohuichen03 • 0
Hi, Thank you for your advice. When searching on a file of IDs, should the command line be $ grep...
C: Retrieving individual clusters from RNA-seq hierarchical clustering in R by Kevin Blighe ♦ 19k
Yes, that's generally the result of using Ward's linkage, but there's not exactly a right or wron...
C: Build a HISAT2 index of hg 19 by genomax ♦ 47k
At the index build step, unfortunately yes, since I don't think there is any way for the program ...
A: Build a HISAT2 index of hg 19 by mlemusfuentes • 0
you say that all working was lost?, delete those *.ht2 would be like starting over...
C: Bowtie2 align error by Bastien Hervé • 1.0k
If OP really have 128GB of RAM, he can align every genome he wants with bowtie2. It's a memory p...
A: getting a combination of all predicted genes by Alex Reynolds ♦ 23k
Union with `bedops -u` and perhaps filter the unioned set by overlap with `bedmap --range` or `be...
A: How to get million target snps info(ie. chromosome, location) in a easy way? by Alex Reynolds ♦ 23k
One way to do this is via the command line. You could download SNP annotations via `wget`. For ex...
C: RNA secondary structure - Feature extraction by cschu181 • 1.0k
Ok, please pull the code from github again. I have modified that you can run it on a bracket stri...

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