Showing : RCy3 • reset
1
vote
2
replies
769
views
KEGGgraph result difference
igraph KEGGgraph RCy3 GraphNEL
13 months ago • updated 12 months ago Arindam ▴ 80
2
votes
2
replies
1.2k
views
Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(paste("networks", net.suid, "tables", tbl, sep = "/"), : object 're…
RCy3
17 months ago Matthew Thornton ▴ 380
1
vote
1
reply
640
views
Going back to default settings in RCy3
Cytoscape RCy3 RCy
updated 21 months ago by ▴ 30 • written 22 months ago by ▴ 90
1
vote
1
reply
1.4k
views
How to select subnetworks, or regions, with a certain number of nodes or edges with RCy3
Network RCy3
updated 21 months ago by ▴ 30 • written 22 months ago by ▴ 90
1
vote
1
reply
1.1k
views
Cytohubba in RCY3
RCy3 Cytohubba
updated 21 months ago by ▴ 30 • written 21 months ago by ▴ 10
3
votes
7
replies
2.4k
views
"Degree values are the same for all nodes in a network imported from WGCNA to Cytoscape using RCy3. Seeking insights and potential causes."
Cytoscape RCy3 Networkvisualization WGCNA
2.4 years ago Ortega-C ▴ 10
1
vote
1
reply
1.2k
views
how to call an app from Cytoscape using R?
RCy3
updated 2.7 years ago by ▴ 30 • written 2.7 years ago by ▴ 40
2
votes
3
replies
2.1k
views
Aggregating genes from multiple GSE's, ranking them, then building a PPI network.
GEOquery CancerData limma RCy3 CancerInSilico
updated 3.9 years ago by ★ 13k • written 3.9 years ago by ▴ 50
1
vote
2
replies
1.4k
views
RCy3 Cytoscape package question
rcy3
updated 4.8 years ago by ▴ 30 • written 5.8 years ago by ▴ 10
1
vote
3
replies
1.9k
views
loadTableData function from RCy3 returns "Failed to load data: Provided key columns do not contain any matches"
Cytoscape Pathways Wikipathways rWikiPathways RCy3
4.9 years ago • updated 4.8 years ago Emilia ▴ 40
0
votes
1
reply
1.1k
views
Importing Newick trees in Cytoscape by conversion to igraph via RCy3
RCy3 Cytoscape R Newick Bioconductor
updated 4.8 years ago by ▴ 30 • written 5.2 years ago by • 0
3
votes
4
replies
2.0k
views
Exporting graphNEL into Cytoscape using RCy3 fails with 'arguments imply differing number of rows'
RCy3 Cytoscape Rgraphviz GOstats
6.4 years ago Matthew Thornton ▴ 380
12 results • Page 1 of 1
Recent ...
Replies
Comment: Help with defining groups by Phinney, Brett ▴ 10
I got it working , thank you!!!
Comment: Check removeBatchEffect effectiveness by massimo • 0
I would kindly ask for additional support. When not including the design_timepoint argument in removeBatchEffect and thus keeping the inter…
Comment: Error Loading Experiment from SimBenchData Package by ksankaran • 0
Aha, that was it! The object was class Seurat, but I didn't have it installed. After installing, everything works as expected.
Comment: Streamlining the computing time for MiloDE p-value correction in large dataset? by ATpoint ★ 5.0k
Is a method that is so computationally expensive really beneficial and necessary? You seem to have biological replication, don't you, so ps…
Answer: NA values for DESeq2 p-values and adjusted p-values using large sample sizes by ATpoint ★ 5.0k
Outliers without replacement, independent filtering or all-zero counts for that gene. That's the three options that trigger NAs https://bio…
Votes
Comment: Check removeBatchEffect effectiveness
Gene expression associated with continuous (quantitative) traits (Limma/edgeR/correlation)
Answer: Error Loading Experiment from SimBenchData Package
Comment: incomplete imputation of missing values with LEA impute() function
Answer: Expected memory usage for analyzing large single-cell seq datasets (> 450,000 ce
Awards • All
Popular Question to Gordon Smyth 53k
Popular Question to Hervé Pagès 16k
Popular Question to shepherl 4.2k
Popular Question to Michael Love 43k
Popular Question to Peter • 0
Locations • All
United States, 16 minutes ago
United States, 24 minutes ago
United States, 37 minutes ago
Hong Kong, 1 hour ago
WEHI, Melbourne, Australia, 1 hour ago
Traffic: 560 users visited in the last hour
Content Search
Users
Tags
Badges
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6