├── .DS_Store ├── .gitignore ├── Example ├── EnvVar │ ├── HGDP_LATS_GLOBAL │ ├── HGDP_SUMPC1_AFRICA │ ├── HGDP_SUMPC1_AMERICA │ ├── HGDP_SUMPC1_CENTASIA │ ├── HGDP_SUMPC1_EASTASIA │ ├── HGDP_SUMPC1_EUROPE │ ├── HGDP_SUMPC1_GLOBAL │ ├── HGDP_SUMPC1_MIDEAST │ ├── HGDP_SUMPC1_OCEANIA │ ├── HGDP_SUMPC2_AFRICA │ ├── HGDP_SUMPC2_AMERICA │ ├── HGDP_SUMPC2_CENTASIA │ ├── HGDP_SUMPC2_EASTASIA │ ├── HGDP_SUMPC2_EUROPE │ ├── HGDP_SUMPC2_GLOBAL │ ├── HGDP_SUMPC2_MIDEAST │ ├── HGDP_SUMPC2_OCEANIA │ ├── HGDP_WINPC1_AFRICA │ ├── HGDP_WINPC1_AMERICA │ ├── HGDP_WINPC1_CENTASIA │ ├── HGDP_WINPC1_EASTASIA │ ├── HGDP_WINPC1_EUROPE │ ├── HGDP_WINPC1_GLOBAL │ ├── HGDP_WINPC1_MIDEAST │ ├── HGDP_WINPC1_OCEANIA │ ├── HGDP_WINPC2_AFRICA │ ├── HGDP_WINPC2_AMERICA │ ├── HGDP_WINPC2_CENTASIA │ ├── HGDP_WINPC2_EASTASIA │ ├── HGDP_WINPC2_EUROPE │ ├── HGDP_WINPC2_GLOBAL │ ├── HGDP_WINPC2_MIDEAST │ └── HGDP_WINPC2_OCEANIA ├── Genome_Data │ ├── genome.file.txt │ └── match.file.txt ├── Run_Files │ └── exampleHeightRunFile.R └── Trait_Data │ ├── height.HapMapInHGDP_PositionsAndBValues.freqs │ └── height.txt ├── README.md └── Scripts ├── .DS_Store ├── CreateTraitFile.R ├── functions.R └── sampleSNPs.pl /.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/.DS_Store -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/.gitignore -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_LATS_GLOBAL: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_LATS_GLOBAL -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_AFRICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_AFRICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_AMERICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_AMERICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_CENTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_CENTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_EASTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_EASTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_EUROPE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_EUROPE -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_GLOBAL: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_GLOBAL -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_MIDEAST: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_MIDEAST -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC1_OCEANIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC1_OCEANIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_AFRICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_AFRICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_AMERICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_AMERICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_CENTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_CENTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_EASTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_EASTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_EUROPE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_EUROPE -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_GLOBAL: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_GLOBAL -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_MIDEAST: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_MIDEAST -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_SUMPC2_OCEANIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_SUMPC2_OCEANIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_AFRICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_AFRICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_AMERICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_AMERICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_CENTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_CENTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_EASTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_EASTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_EUROPE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_EUROPE -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_GLOBAL: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_GLOBAL -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_MIDEAST: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_MIDEAST -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC1_OCEANIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC1_OCEANIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_AFRICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_AFRICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_AMERICA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_AMERICA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_CENTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_CENTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_EASTASIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_EASTASIA -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_EUROPE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_EUROPE -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_GLOBAL: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_GLOBAL -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_MIDEAST: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_MIDEAST -------------------------------------------------------------------------------- /Example/EnvVar/HGDP_WINPC2_OCEANIA: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/EnvVar/HGDP_WINPC2_OCEANIA -------------------------------------------------------------------------------- /Example/Genome_Data/genome.file.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/Genome_Data/genome.file.txt -------------------------------------------------------------------------------- /Example/Genome_Data/match.file.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/Genome_Data/match.file.txt -------------------------------------------------------------------------------- /Example/Run_Files/exampleHeightRunFile.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/Run_Files/exampleHeightRunFile.R -------------------------------------------------------------------------------- /Example/Trait_Data/height.HapMapInHGDP_PositionsAndBValues.freqs: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/Trait_Data/height.HapMapInHGDP_PositionsAndBValues.freqs -------------------------------------------------------------------------------- /Example/Trait_Data/height.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Example/Trait_Data/height.txt -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/README.md -------------------------------------------------------------------------------- /Scripts/.DS_Store: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Scripts/.DS_Store -------------------------------------------------------------------------------- /Scripts/CreateTraitFile.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Scripts/CreateTraitFile.R -------------------------------------------------------------------------------- /Scripts/functions.R: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Scripts/functions.R -------------------------------------------------------------------------------- /Scripts/sampleSNPs.pl: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/jjberg2/PolygenicAdaptationCode/HEAD/Scripts/sampleSNPs.pl --------------------------------------------------------------------------------