# Flight
The python component used by [Lorikeet](https:/github.com/rhysnewell/Lorikeet) and [Rosella](https:/github.com/rhysnewell/rosella)
It can be used as a standalone binning algorithm for MAGs, but will not include contig SNP information
which is collected by Rosella.
# Installation
This module is only used in conjunction with other programs, but if you wish to install and play around with the code
follow these instructions:
```
git clone https://github.com/rhysnewell/flight.git
cd flight
conda env create -n flight -f flight.yml
conda activate flight
pip install .
flight bin --help
```
# Requirements
Initial requirements for flight can be downloaded using the `flight.yml`:
```
conda env create -n flight -f flight.yml
```
# Usage
To perform mag recovery:
```
flight bin --assembly scaffolds.fasta --input coverm.cov --output output_dir/ --threads 24
```
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