mummy_genotypes

General

Pipeline to perform burden test for increased mutational burden in different case/control cohorts based on genotyped data.
Based on and extension of:

SNPset association testing using mixed effect models to allow inclusion of related or admixed samples

extension of gene regions with associated regulatory regions

Name		Name	Last commit message	Last commit date
Latest commit History 1 Commit
input		input
Burden_testing.pl		Burden_testing.pl
GENCODE.pm		GENCODE.pm
GetVariant.pm		GetVariant.pm
README.md		README.md
Scoring.pm		Scoring.pm
catch_error.sh		catch_error.sh
check_input.sh		check_input.sh
config.txt		config.txt
gencode_genes_V25_GRCh37.tsv.gz		gencode_genes_V25_GRCh37.tsv.gz
gencode_genes_V25_GRCh38.MONSTERname.tsv.gz		gencode_genes_V25_GRCh38.MONSTERname.tsv.gz
gencode_genes_V25_GRCh38.tsv.gz		gencode_genes_V25_GRCh38.tsv.gz
get_geno.sh		get_geno.sh
helper.sh		helper.sh
hg19ToHg38.over.chain		hg19ToHg38.over.chain
hg38ToHg19.over.chain		hg38ToHg19.over.chain
identify_impute2_chunks_needed.R		identify_impute2_chunks_needed.R
make_MONSTER_snplist_remove_indel.R		make_MONSTER_snplist_remove_indel.R
my_Burden_testing.pl		my_Burden_testing.pl
my_MONSTERgenome-wideV2.sh		my_MONSTERgenome-wideV2.sh
run_mummy_submit.sh		run_mummy_submit.sh