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Commit 3b3fa4c2 authored by TRON Kelly's avatar TRON Kelly
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tp1

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# Les données analysées nécessitant beaucoup de RAM, nous allons sélectionner aléatoirement 250000 SNPs et réecrire des fichiers bed, bim, fam
penncath_bed_path = "results/data/penncath.bed"
penncath_bim_path = "results/data/penncath.bim"
penncath_fam_path = "results/data/penncath.fam"
geno <- snpStats::read.plink(penncath_bed_path, penncath_bim_path, penncath_fam_path, select.snps=sample(1:861473, 25000, replace = FALSE ), na.strings = ("-9"))
# Les données analysées nécessitant beaucoup de RAM, nous allons sélectionner aléatoirement 250000 SNPs et réecrire des fichiers bed, bim, fam
penncath_bed_path = "~/Bureau/project_reprod/m2reprod/results/data/penncath.bed"
penncath_bim_path = "~/Bureau/project_reprod/m2reprod/results/data/penncath.bim"
penncath_fam_path = "~/Bureau/project_reprod/m2reprod/results/data/penncath.fam"
geno <- snpStats::read.plink(penncath_bed_path, penncath_bim_path, penncath_fam_path, select.snps=sample(1:861473, 25000, replace = FALSE ), na.strings = ("-9"))
# Makefile
all : results/tp3/TP3_asbvg.RData
results/tp3/TP3_asbvg.RData: results/tp1/plink_base.bed results/tp1/plink_base.bim results/tp1/plink_base.fam results/tp1/TP1_asbvg.RData
Rscript src/tp1.R
results/tp1/plink_base.bed results/tp1/plink_base.bim results/tp1/plink_base.fam results/tp1/TP1_asbvg.RData: results/data/penncath.bed results/data/penncath.bim results/data/penncath.fam
Rscript src/tp1.R
results/data/penncath.bed results/data/penncath.bim results/data/penncath.fam:
Rscript src/download_data.R
clean:
rm -rf results/data/penncath.bed results/data/penncath.bim results/data/penncath.fam results/data/penncath.csv results/penncath.tar.gz results/data
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