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igraph
•
reset
2
votes
5
replies
1.4k
views
Modularity values of clusters and Differential Expression in scRNA-Seq
scater
scran
igraph
scRNA-Seq
rots
updated 5.2 years ago by
Aaron Lun
★ 28k • written 5.2 years ago by
hamza_karakurt
▴ 50
2
votes
4
replies
2.7k
views
getting a directed and unweighted adjacency matrix with igraph package
igraph
updated 8.3 years ago by
Hervé Pagès
16k • written 8.3 years ago by
Angel
▴ 40
0
votes
4
replies
2.0k
views
Package "geNetClassifier": is this an "igraph' error?
software error
geNet
igraph
genetclassifier
updated 8.8 years ago by
saibar
▴ 20 • written 8.8 years ago by
alakatos
▴ 130
0
votes
2
replies
3.3k
views
get vertex xy coords from igraph mst plot
igraph
6.5 years ago
Andrew Box
▴ 10
0
votes
2
replies
2.0k
views
Unable to follow example SPADE usage - Cannot create iterator, invalid vertex id
igraph
spade
updated 6.9 years ago by
johnheath346
• 0 • written 8.4 years ago by
duncanjamesmurray01
• 0
2
votes
2
replies
1.2k
views
taking intersection between 6 networks by graph.intersect
igraph
software error
adjacency matrix
updated 8.0 years ago by
Paul Shannon
▴ 470 • written 8.0 years ago by
Angel
▴ 40
0
votes
2
replies
1.2k
views
STRING_id mismatch with STRINGdb
STRINGdb
igraph
5.1 years ago
Samuel Lee
• 0
0
votes
2
replies
2.9k
views
Problems with bioconductor after updating R to 3.6.2
R 3.6.2 update problems with igraph and phangorn update
Phyloseq
igraph
phangorn
Tutorial
updated 4.4 years ago by
Martin Morgan
25k • written 4.4 years ago by
crgarcia
• 0
1
vote
1
reply
1.5k
views
QuACN and igraph: Error: .validateGraph(g) is not TRUE
QuACN
igraph
6.7 years ago
lljotall
▴ 10
0
votes
1
reply
905
views
igraph page_rank miR2Pathway: Top ranked list, printing out pathway names
igraph
miR2Pathway
Pathway
page_rank
updated 6.1 years ago by
Martin Morgan
25k • written 6.1 years ago by
genomic8328
▴ 10
0
votes
1
reply
1.9k
views
Invalid vertex id while running R_igraph_spinglass_my_community on FEM package
FEM
igraph
updated 8.5 years ago by
andrew
• 0 • written 8.5 years ago by
sirintra
▴ 10
0
votes
1
reply
621
views
GRanges list convert into igraph format
GRanges
igraph
updated 15 months ago by
Lluís Revilla Sancho
▴ 730 • written 15 months ago by
Bogdan
▴ 670
0
votes
1
reply
1.5k
views
igraph clustering for gene coexpression network
igraph
network
gene corexpression
rna-seq
updated 2.7 years ago by
Gordon Smyth
50k • written 5.1 years ago by
aiswaryabioinfo
• 0
0
votes
0
replies
961
views
project tophits onto a public PPI (protein-protein interaction) dbase to identify neighbours
ppi
network analysis
igraph
7.9 years ago
Abhishek Pratap
▴ 190
0
votes
0
replies
1.6k
views
failed ToPASeq / igraph installation: file present, but not found
installation
package installation
topaseq
igraph
LD_LIBRARY_PATH
7.3 years ago
jan.soderman
• 0
0
votes
0
replies
1.1k
views
read tree fails for large trees
RamiGO
R
gene ontology
igraph
8.2 years ago
bkellman
• 0
0
votes
0
replies
988
views
igraph PoTRA error
graph
pathways
igraph
6.1 years ago
genomic8328
▴ 10
0
votes
0
replies
528
views
coexpression networks
WGCNA
igraph
17 months ago
María José
• 0
0
votes
0
replies
1.1k
views
Co-occurrence Network Analysis between Algae and Bacteria
igraph
networkanalysis
Phylogenetics
phyloseq
3.3 years ago
Chantel
• 0
19 results • Page
1 of 1
Recent ...
Replies
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Comment: Too many significant genes when integrating gtex and tcga
by
Michael Love
41k
Yes, this was one of the aspects we highlighted in the 2014 paper, and it's also in the workflow. Check these places first. Also take a st…
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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