Welcome to ipyrad¶
Documentation¶
- The ipyrad ethos
- Try it now
- Installation
- Getting Started: Files and Data Types
- Getting Started: Demultiplexing
- Assembly: Parameters
- Assembly: Seven Steps
- Assembly: Branching and Merging
- Assembly: Tutorials
- API: ipyrad assembly workflow
- API: ipyrad analysis tools
- ipa.treemix
- ipa.pca
- ipa.raxml
- ipa.tetrad
- ipa.structure
- ipa.sratools
- ipa.baba
- ipa.bucky
- ipa.window_extacter
- ipa.treeslider 1
- Required software
- Short Tutorial:
- Write the trees column to a file
- Get Astral
- Run Astral
- Plot astral species tree
- Plot astral species tree with quartet supports
- Required software
- Short Tutorial:
- Longer tutorial
- Cookbook
- What’s next?