Skip to content

Overview

GAISHI uses simulated training data and machine learning models to detect introgressed sites or haplotypes.

There are two subcommands in GAISHI:

  • train
  • infer

To display help information for each subcommand, users can use:

gaishi subcommand -h

For example:

gaishi train -h

Note: In this manual, we define the population without introgressed fragments as the reference population, the population receiving introgressed fragments as the target population, and the population donating introgressed fragments as the source population.

The example commands assume that users have cloned the GAISHI GitHub repository and run the commands from the root directory of the repository:

git clone https://github.com/xin-huang/gaishi
cd gaishi