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flight - metagenomic binner and variant clusterer.

Project description


The python component used by Lorikeet and Rosella It can be used as a standalone binning algorithm for MAGs, but will not include contig SNP information which is collected by Rosella.


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
cd flight
conda env create -n flight -f flight.yml
conda activate flight
pip install .
flight bin --help


Initial requirements for flight can be downloaded using the flight.yml:

conda env create -n flight -f flight.yml


To perform mag recovery:

flight bin --assembly scaffolds.fasta --input coverm.cov --output output_dir/ --threads 24

Project details

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