├── DESCRIPTION ├── NAMESPACE ├── R ├── data.R ├── eQTLsingle.R ├── eQTLsingle_build_metadata.R ├── eQTLsingle_visualization.R ├── snv_matrix.R ├── snv_readcounts_tidy.R └── snv_reference.R ├── README.md ├── data ├── toy_expressionMatrix.rda └── toy_snvMatrix.rda ├── eQTLsingle.Rproj ├── inst └── shell │ ├── eQTLsingle-Preprocessing.sh │ ├── eQTLsingle-SNVPostAnalysis.sh │ └── utilities │ ├── SNV_calling.sh │ ├── check_command.sh │ ├── make_matrix.sh │ ├── mapping.sh │ ├── quantify.sh │ └── snv_matrix.py ├── man ├── eQTLsingle.Rd ├── eQTLsingle_build_metadata.Rd ├── eQTLsingle_visualization.Rd ├── snv_matrix.Rd ├── snv_readcounts_tidy.Rd ├── snv_reference.Rd ├── toy_expressionMatrix.Rd └── toy_snvMatrix.Rd └── vignettes ├── .gitignore ├── eQTLsingle.Rmd ├── eQTLsingle.md ├── eQTLsingle_overview.png └── visualization_plot.png /DESCRIPTION: -------------------------------------------------------------------------------- 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