StatGenPRD / GWASImputationPipeline Public

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Scripts for facilitating execution of previously published tools to infer additional genome-wide genotypes for subjects based on lab based genetic data for the subjects and publically available reference datasets.

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Name		Name	Last commit message	Last commit date
Latest commit History 34 Commits
1_README_qc.sh		1_README_qc.sh
2_README_phase.sh		2_README_phase.sh
3_README_impute.sh		3_README_impute.sh
4_README_genotyped.sh		4_README_genotyped.sh
5_README_chrx_rmextra.sh		5_README_chrx_rmextra.sh
6_README_permission.sh		6_README_permission.sh
Phase_Impute.sh		Phase_Impute.sh
Pre-imputation_QC.sh		Pre-imputation_QC.sh
README.md		README.md
add-genetic-map-hg19.R		add-genetic-map-hg19.R
alignment-report.R		alignment-report.R
chunk-dispatch.py		chunk-dispatch.py
cmd.txt		cmd.txt
consensus-merge.py		consensus-merge.py
convert-hapiur-mach.py		convert-hapiur-mach.py
dfilter.py		dfilter.py
extract-dose.py		extract-dose.py
gwas-qc-Makefile		gwas-qc-Makefile
imputation-Makefile		imputation-Makefile
imputation-Makefile.png		imputation-Makefile.png
imputation-alignment.py		imputation-alignment.py
phase-dispatch.py		phase-dispatch.py
plink2dose.r		plink2dose.r