na399 / popgen-project Goto Github PK
View Code? Open in Web Editor NEWStructure and admixture in the Grant's gazelle species complex
Home Page: https://na399.github.io/popgen-project/
popgen-project's People
Contributors
Watchers
Forkers
adhamkmopppopgen-project's Issues
run adegenet
genlight/genind class issue
try STRUCTURE format?
run TreeMix
Use plink2treemix.py to convert the file format, the rest should hopefully be straightforward.
Added a small script to convert stratified allele frequencies output from plink into TreeMix format.
This will be incorporated into the next release, but for the moment must be downloaded
separately. To run this, let's say you have data in plink format (e.g., data.bed, data.bim,
data.fam) and a plink cluster file matching each individual to a population (data.clust).
Now you run:
plink --bfile data --freq --missing --within data.clust
gzip plink.frq
plink2treemix.py plink.frq.gz treemix.frq.gz
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.