https://github.com/na399/popgen-project
Structure and admixture in the Grant's gazelle species complex
https://github.com/na399/popgen-project
Last synced: 2 months ago
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Structure and admixture in the Grant's gazelle species complex
- Host: GitHub
- URL: https://github.com/na399/popgen-project
- Owner: na399
- Created: 2017-03-15T13:52:10.000Z (about 8 years ago)
- Default Branch: master
- Last Pushed: 2017-04-05T20:06:13.000Z (about 8 years ago)
- Last Synced: 2025-02-05T10:39:26.562Z (4 months ago)
- Language: OpenEdge ABL
- Homepage: https://na399.github.io/popgen-project/
- Size: 10 MB
- Stars: 0
- Watchers: 2
- Forks: 1
- Open Issues: 2
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Metadata Files:
- Readme: README.md
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README
# Structure and admixture in the Grant's gazelle species complex
## Population Genetics 2017, University of Copenhagen
##### Author: (alphabetical order)
Natthawut Adulyanukosol, Adham Khaled, Emilia Rolander Langkjær, Povilas Matusevicius, Malou Fabricius Rægaard Storm, Tharsika Vimalasuntharam
## Directories:
- [original_data](./original_data): given SNP data
- [processed_data](./processed_data): processed from original_data with commands given in `scripts\`
- [additional_files](./additional_files): files created for some analyses
- [results](./results): output from analyses
- [scripts](./scripts): as markdown or script files
## Scripts
0. [Pre-processing](./scripts/0.pre-processing)
1. [PCA with PLINK](./scripts/1.PLINK_PCA_with_pruning.md)
2. [Genetic distance with adegenet](./scripts/2.Adegenet.Rmd)
3. [ADMIXTURE](./scripts/3.ADMIXTURE.md)
4. [TreeMix](./scripts/4.Treemix.md)