paulsengroup/modle
Sponsored OSS
MoDLE: High-performance stochastic modeling of DNA loop extrusion interactions
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paulsengroup/modle repository overview
MoDLE
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MoDLE is a computational tool for fast, stochastic modeling of molecular contacts from DNA loop extrusion capable of simulating realistic contact patterns genome wide in a few minutes.
Using MoDLE
The recommended way to run MoDLE is using the official containers hosted on dockerhub and ghcr.io
sudo docker run paulsengroup/modle:1.0.0 --help
High-performance stochastic modeling of DNA loop extrusion interactions.
Usage: /usr/local/bin/modle [OPTIONS] SUBCOMMAND
Options:
-h,--help Print this help message and exit
-V,--version Display program version information and exit
--config Path to MoDLE's config file (optional).
Subcommands:
simulate, sim Simulate loop extrusion and write resulting molecular contacts in a .cool file.
Please refer to paulsengroup/modle for more details.
LICENSE
MIT license
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about 1 year ago
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