StatisticalGeneticsFinalProject

Final project for the Statistical Models in Human Genetics course: a genome-wide association study

PLINK 1.9 was used for quality control and association testing. Python for plotting and managing data, as explained in the notebook

Name		Name	Last commit message	Last commit date
Latest commit History 3 Commits
Plots		Plots
Code.ipynb		Code.ipynb
README.md		README.md
SignificativeSNPS.tsv		SignificativeSNPS.tsv
data.log		data.log
gwas.assoc.logistic		gwas.assoc.logistic
gwas.assoc.logistic.adjusted		gwas.assoc.logistic.adjusted
gwas.log		gwas.log
het_fail.tsv		het_fail.tsv
het_fail.txt		het_fail.txt
ibd.genome		ibd.genome
ibd.log		ibd.log
ld-prune.log		ld-prune.log
ld-prune.prune.in		ld-prune.prune.in
ld-prune.prune.out		ld-prune.prune.out
ld_qc.log		ld_qc.log
ld_qc.prune.in		ld_qc.prune.in
ld_qc.prune.out		ld_qc.prune.out
pca.eigenval		pca.eigenval
pca.eigenvec		pca.eigenvec
pca.log		pca.log
plink.log		plink.log
pruned.log		pruned.log
pruned_final.log		pruned_final.log
qc.log		qc.log
qc_final.log		qc_final.log
related.genome		related.genome
related.log		related.log
related.txt		related.txt
stats.frq		stats.frq
stats.het		stats.het
stats.hwe		stats.hwe
stats.ibc		stats.ibc
stats.imiss		stats.imiss
stats.lmiss		stats.lmiss
stats.log		stats.log
stats.missing		stats.missing

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