GitHub - speciationgenomics/scripts: Scripts for analysis used during the course

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Name		Name	Last commit message	Last commit date
Latest commit History 27 Commits
SLiM_neutral_expansion_loop.sh		SLiM_neutral_expansion_loop.sh
SLiM_plotting.R		SLiM_plotting.R
SLiM_run_population_contraction.sh		SLiM_run_population_contraction.sh
SLiM_run_population_expansion.sh		SLiM_run_population_expansion.sh
SLiM_run_recent_population_contraction.sh		SLiM_run_recent_population_contraction.sh
SLiM_run_stable_popsize.sh		SLiM_run_stable_popsize.sh
align_sort_loop.sh		align_sort_loop.sh
calculateAIC.sh		calculateAIC.sh
calculate_bam_coverage.sh		calculate_bam_coverage.sh
checkHetsIndvVCF.sh		checkHetsIndvVCF.sh
convertVCFtoEigenstrat.sh		convertVCFtoEigenstrat.sh
convert_vcf_to_geno.sh		convert_vcf_to_geno.sh
easysfs_conversion.sh		easysfs_conversion.sh
filter_vcf.sh		filter_vcf.sh
find_outliers_and_genes_all.R		find_outliers_and_genes_all.R
fsc-selectbestrun.sh		fsc-selectbestrun.sh
genomeScan.r		genomeScan.r
genome_wide_FST.sh		genome_wide_FST.sh
genome_windows.sh		genome_windows.sh
ldPruning.sh		ldPruning.sh
ld_decay_calc.py		ld_decay_calc.py
ld_pruning_pca.sh		ld_pruning_pca.sh
neutral_contraction.slim		neutral_contraction.slim
neutral_expansion.slim		neutral_expansion.slim
neutral_expansion_loop.sh		neutral_expansion_loop.sh
neutral_recentContraction.slim		neutral_recentContraction.slim
neutral_stable.slim		neutral_stable.slim
parallel_align.sh		parallel_align.sh
parallel_align_100k.sh		parallel_align_100k.sh
plotADMIXTURE.r		plotADMIXTURE.r
plotModel.r		plotModel.r
sample_vcf_create_stats.sh		sample_vcf_create_stats.sh
slidingWindow_plotting.r		slidingWindow_plotting.r
test.slim		test.slim
test1.slim		test1.slim
vcf2treemix.sh		vcf2treemix.sh