Comments (4)
Hi Wei,
Looks like this error can occur in igraph if node names contain a 0 integer value. Are your cluster IDs of the form 0,1,2,3 etc? If so, I've made a change that should fix the issue.
Cheers,
Ralph
from sctalk.
Awesome, Thanks Ralph that has fixed the issue!
On another note, we tend to put our cell identity under another heading within meta.data under the seurat object (we use singleR for automatic cell identification). How can we utilize these annotations and transfer them (or apply them) during our scTALK analysis?
Thanks,
Wei
PS this is what our object's metadata looks like.
from sctalk.
Hi Wei,
scTalk operates on whatever is defined in the 'active.ident' slot, so just set Idents(stanford) <- [email protected]$SingleR.cells
before running the pipeline.
Cheers,
Ralph
from sctalk.
amazing! got it!
from sctalk.
Related Issues (6)
Recommend Projects
-
React
A declarative, efficient, and flexible JavaScript library for building user interfaces.
-
Vue.js
🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
-
Typescript
TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
-
TensorFlow
An Open Source Machine Learning Framework for Everyone
-
Django
The Web framework for perfectionists with deadlines.
-
Laravel
A PHP framework for web artisans
-
D3
Bring data to life with SVG, Canvas and HTML. 📊📈🎉
-
Recommend Topics
-
javascript
JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
-
web
Some thing interesting about web. New door for the world.
-
server
A server is a program made to process requests and deliver data to clients.
-
Machine learning
Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
-
Visualization
Some thing interesting about visualization, use data art
-
Game
Some thing interesting about game, make everyone happy.
Recommend Org
-
Facebook
We are working to build community through open source technology. NB: members must have two-factor auth.
-
Microsoft
Open source projects and samples from Microsoft.
-
Google
Google ❤️ Open Source for everyone.
-
Alibaba
Alibaba Open Source for everyone
-
D3
Data-Driven Documents codes.
-
Tencent
China tencent open source team.
from sctalk.