https://github.com/4ment/phylojax

https://github.com/4ment/phylojax

jax phylogenetics variational-inference

Last synced: 8 months ago
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• Host: GitHub
• URL: https://github.com/4ment/phylojax
• Owner: 4ment
• License: gpl-3.0
• Created: 2021-08-24T10:14:13.000Z (almost 5 years ago)
• Default Branch: master
• Last Pushed: 2023-03-27T01:54:04.000Z (about 3 years ago)
• Last Synced: 2024-12-27T04:42:25.441Z (over 1 year ago)
• Topics: jax, phylogenetics, variational-inference
• Language: Python
• Homepage:
• Size: 90.8 KB
• Stars: 2
• Watchers: 2
• Forks: 0
• Open Issues: 0
• Metadata Files:
  • Readme: README.md
  • License: LICENSE

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README

          
# phylojax

## Installation

### Get the phylojax source

```bash

git clone https://github.com/4ment/phylojax

cd phylojax

```

### Install dependencies

Installing dependencies using Anaconda

```bash

conda env create -f environment.yml

conda activate phylojax

```

### Install phylotorch

```bash

python setup.py install

```

### Check install

```bash

phylojax --help

```

### Quick start

```bash

phylojax -t examples/fluA.tree -i examples/fluA.fa -m JC69

```