Skip to content
Snippets Groups Projects
Commit c634bf14 authored by alice.boizet_cirad.fr's avatar alice.boizet_cirad.fr
Browse files

add authors and description to README

parent 1410b2c6
No related branches found
No related tags found
No related merge requests found
# PopSimul # PopSimul
## Authors
Cécile Triay (IRD)
Alice Boizet (CIRAD)
Mathias Lorieux (IRD)
Mathieu Triay (Atelier Triay)
## Description ## Description
This tool enables to simulate a VCF of a bi-parental population. It can be used to produce a VCF under controlled conditions with setting parameters such as average depth, marker density and expected error rate. It produces 2 VCF files with the simulated genotypes, one with simulated data, and one with the same simulated data but with simulated genotyping errors.
The Breakpoints csv file contains the positions of exact genotypes transitions based on the simulated data. This tool has been used to test NOISYmputer (https://gitlab.cirad.fr/noisymputer/noisymputerstandalone) to compare exact Breakpoints position to Breakpoints positions determined on imputed data.
## Requirements ## Requirements
python 3 python 3
...@@ -25,3 +33,5 @@ You can see all parameters by running this command ...@@ -25,3 +33,5 @@ You can see all parameters by running this command
| -m | --max_depth | max depth | 10 | | -m | --max_depth | max depth | 10 |
| -eA | --error_rate_A | error rate for A | 0.05 | | -eA | --error_rate_A | error rate for A | 0.05 |
| -eB | --error_rate_B | error rate for B | 0.05 | | -eB | --error_rate_B | error rate for B | 0.05 |
0% Loading or .
You are about to add 0 people to the discussion. Proceed with caution.
Finish editing this message first!
Please register or to comment