An epistasis simulation pipeline Long Description (required)
EpiGEN is an easy-to-use epistasis simulation pipeline written in Python. It supports epistasis models of arbitrary size, which can be specified either extensionally or via parametrized risk models. Moreover, the user can specify the minor allele frequencies (MAFs) of both noise and disease SNPs, and provide a biased target distribution for the generated phenotypes to simulate observation bias. https://github.com/daisybio/epigen david.blumenthal@wzw.tum.de
Step 1: Use the attribute tree to add new attributes or remove pre-selected attributes to describe the simulator.
Every sub-attribute is selected Not all sub-attributes are selectedFill Clear Expand Collapse Reset
Summary of Proposed Changes Step 2: Review list of proposed attribute addition(s) and subtraction(s).
Can't Find the Attribute You Are Looking For? If you would like to propose an attribute that you cannot find in the tree above, or if you would like to add a clarification to one or more attributes for this simulator (e.g. a specific file format for attribute /Output/File Format/Other), please list them in the Additional Comment box of the Submit tab .
Summary of Proposed Changes Current Citations/Applications
[Pubmed ID: 32289146 ],
Blumenthal DB, Viola L, List M, Baumbach J, Tieri P, Kacprowski T ,
EpiGEN: an epistasis simulation pipeline. ,
Bioinformatics ,
12-08-2020 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=32289146, Primary Citation
[Pubmed ID: 35180244 ],
Russ D, Williams JA, Cardoso VR, Bravo-Merodio L, Pendleton SC, Aziz F, Acharjee A, Gkoutos GV ,
Evaluating the detection ability of a range of epistasis detection methods on simulated data for pure and impure epistatic models. ,
PLoS One ,
02-18-2022 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=35180244, , Application