Cytoscape
Gephi
Graphviz
KeyLines
UCINET
NodeXL
Pajek
SocNetV
LucidChart
draw.io
yEd
PlantUML
OmniGraffle
Visio
Gliffy
Dia
Cytoscape LucidChartBased on our record, Cytoscape should be more popular than LucidChart. It has been mentiond 11 times since March 2021. We are tracking product recommendations and mentions on various public social media platforms and blogs. They can help you identify which product is more popular and what people think of it.
Doing a bit more digging, it's using cytoscape[0] which is similar to graphviz. If you search your favorite search engine with "Cytoscape Session Viewer", you'll find many websites displaying the same type of graphs (select layout: circle). FYI, circo doesn't always output a circle. I recently created https://github.com/MegaManSec/SSH-Snake/blob/main/tools/SSH-Snake-dot-circo.png. - Source: Hacker News / 4 months ago
The YAML files are then parsed, and a CYJS file produced, which is a graph model. This is used directly in the web app, but can also be opened in the Cytoscape desktop app , and imported into Neo4j if desired. I can add additional "export" steps to the automated build process, so e.g. GraphML (yEd, Gephi) or DOT files (GraphViz, mermaid, etc) can be used for whatever purpose needed. Source: 12 months ago
Both Cytoscape and Gephi are options that you can try on Windows; both can run some classic community detection algorithms and can be extended with plugins. Personally, I'd recommend you to use igraph, which can be run as an R or python libraries. Then, about the specific algorithm, I have no experience on amino acid communities, but I would approach the issue thinking the properties that you would like to... Source: over 1 year ago
Two common GUI tools for analysis and editing of graph data are Gephi and Cytoscape. An older alternative starting with a P is Pajek, but I've never used it. Source: almost 2 years ago
I've been thinking that Gephi is getting long in the tooth. Has anybody tried Cytoscape? (https://cytoscape.org/) (DNS is SERVFAILing at the moment.) I use it for a combination of "no K" clustering (general exploration) and what's referred to in threat intelligence by the term of art "pivoting". - Source: Hacker News / about 2 years ago
I'm thinking something like a lucidchart.com set up, but also wondering since one project is complete if there is anything that can just analyze an existing codebase and automatically do the work for me. Source: over 2 years ago
Oh! excalidraw.com is great for quick paper style diagrams. I have used it a fair bit. The roam integration is good. But I always revert back to draw.io because it's open sourced, simple to use and just works :D If you are looking for more, a paid option would be lucidchart.com. Source: over 2 years ago
You could try lucidchart.com or draw.io. I have used both. Source: about 3 years ago
Otherwise, you may be thinking about a "mind-map" of sorts... Simply to show relationships? Diagrams.net, lucidchart.com. Source: about 3 years ago
What is difference between Yours tool and others like arcentry.com lucidchart.com cloudcraft.co hava.io ? Would be nice to support diagrams as code ( generated from kubernetes states, terraform, pulumi, etc..) Personally I dont think that another diagram tool can beat ^ platforms. Source: about 3 years ago
Gephi - Gephi is an open-source software for visualizing and analyzing large networks graphs.
draw.io - Online diagramming application
Graphviz - Graphviz is open source graph visualization software. It has several main graph layout programs.
yEd - yEd is a free desktop application to quickly create, import, edit, and automatically arrange diagrams. It runs on Windows, Mac OS X, and Unix/Linux.
KeyLines - The JavaScript toolkit for graph visualization
PlantUML - PlantUML is an open-source tool that uses simple textual descriptions to draw UML diagrams.
