MaxBin¶
MaxBin is used for binning assembled metagenomic sequences based on an Expectation-Maximization algorithm. Version 2.2.7 of MaxBin2 is packaged.
Usage example¶
The following command loads the bundle:
The run_MaxBin.pl and run_FragGeneScan.pl commands are made available. The
maxbin_shell command can be used to access a shell in the bundle.
Run pet list -t maxbin for a list of examples.
Performance notes¶
No performance notes available
Recommended resources per session¶
MaxBin 2 should be run on a system with at least 4 GB of RAM and 8 threads. The recommended resources is taken from the following paper
Improving metagenomic binning results with overlapped bins using assembly graphs. Mallawaarachchi, V.G., Wickramarachchi, A.S. & Lin, Y. Algorithms Mol Biol 16, 3 (2021). doi
Benchmarks¶
No benchmarks available.
Community guides and tutorials¶
- No community guides available.
Official site and documentation¶
- Site
- Unable to locate any documentation.
Licensing information¶
MaxBin2 is licensed under a BSD license
Primary citation¶
MaxBin 2.0: an automated binning algorithm to recover genomes from multiple metagenomic datasets Free Yu-Wei Wu , Blake A. Simmons , Steven W. Singer Bioinformatics, Volume 32, Issue 4, February 2016, Pages 605–607, doi
External guides and resources¶
- If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za