This is a research repo for our project entitled "A historically balanced locus under recent directional selection in responding to changed nitrogen conditions during modern maize breeding".

In this study, we investigated how the maize genome response to the changed N condition during maize breeding history.

A largedata directory was intentionally ignored by adding to gitignore because of the large size of the files within the folder. To guide the visitors having a better idea about the repo, here we briefly introduce the functions or sepecific purposes of the directory system. The layout of directories is based on the idea from ProjectTemplate.

1. cache: Here we store intermediate data sets that are generated during a preprocessing step.
2. data: Here we store our raw data of small size. Data of large size, i.e. > 100M, store in a largedata folder that has been ignored using gitignore.
3. reports: Documentation codes for generating the figures.
4. profilling: Analysis scripts for the project. It contains some sub-directories.
5. table: Table produced during the study.

This repo is free and open source for research usage, licensed under GPLv2.