ahb

Important Files

ahb_pipeline_v2.sh
- full bash script to run ancestry analysis and PCA
n_mitotype.sh
- full bash script to run mitotyping analysis
aimIa_v2.R
- custom R script to caluclate site informativeness for ancestry
ahb_analysis.R
- analyses included in publication, including logistic regression, PCA, and ancestry figures

Name		Name	Last commit message	Last commit date
Latest commit History 26 Commits
aim		aim
outputs		outputs
references		references
sample_lists		sample_lists
.gitignore		.gitignore
1_array_filter_v3.sh		1_array_filter_v3.sh
AHB_markers.fasta		AHB_markers.fasta
AHB_markers_FL.fasta		AHB_markers_FL.fasta
AHB_meta3.csv		AHB_meta3.csv
AIM_v3.sh		AIM_v3.sh
README.md		README.md
ahb_analysis.R		ahb_analysis.R
ahb_metadata.csv		ahb_metadata.csv
ahb_pipeline_v2.sh		ahb_pipeline_v2.sh
aimIa_v2.R		aimIa_v2.R
makeAdmixPop.R		makeAdmixPop.R
n_mitotype.sh		n_mitotype.sh
recombRate.R		recombRate.R
refData.txt		refData.txt
sentinel.txt		sentinel.txt
sra_upload.sh		sra_upload.sh
supervised_admix_v3.sh		supervised_admix_v3.sh
unarchive_cmd2.txt		unarchive_cmd2.txt
unsupervised_v3.sh		unsupervised_v3.sh
zip.sh		zip.sh