Here are software packages developed by members of our group.
| Name | Contact | Description | Links | |
|---|---|---|---|---|
| MPF-BML | Raymond Louie | Minimum probability flow–Boltzmann Machine Learning (MPF–BML) performs fast and accurate inference of maximum entropy model parameters. This has been previously applied to viral-sequence data to design efficient vaccines. | Software | Journal Article |
| MPL | Raymond Louie | Marginal path likelihood (MPL) infers selection from evolutionary histories that resolves genetic linkage. | Software | Journal Article |
| EGAD | Sara Ballouz | EGAD: ultra-fast functional analysis of gene networks | Software | Journal Article |
| f5c | Hasindu Gamaarachchi | f5c: Ultra-fast methylation calling and event alignment tool for nanopore sequencing data (supports CUDA acceleration) | Software | Journal Article |
| slow5lib | Hasindu Gamaarachchi | slow5lib: A software library for reading & writing SLOW5 files. SLOW5 is a new file format for storing signal data from Oxford Nanopore Technologies (ONT) devices. | Software | Journal Article |
| slow5tools | Hasindu Gamaarachchi | slow5tools: A toolkit for converting (FAST5 <-> SLOW5), compressing, viewing, indexing and manipulating data in SLOW5 format. | Software | Journal Article |