Files in BenjaminPlanterose/UMtools
An R-package for analysing Illumina DNA Methylation arrays at the fluorescence intensity level

.Rbuildignore
.Rhistory
.gitignore
DESCRIPTION
LICENSE
NAMESPACE
R/.Rhistory
R/CR_probes-data.R R/GR_to_UM.R R/Kcall_CpG.R R/UM_plot.R R/Visualize_cometh.R R/annot_450K-data.R R/annot_EPIC-data.R R/bGMM.R R/bimodality_coefficient.R R/classification_CpG_SNP_450K-data.R R/classification_CpG_SNP_EPIC-data.R R/compute_BC_CV.R R/compute_CV.R R/density_jitter_plot.R R/export_bigmat.R R/import_bigmat.R R/kurtosis.R R/par_EW_Kcalling.R R/skewness.R R/train_k_caller.R R/training_set-data.R R/triallelic_CpG_SNP_450K-data.R R/triallelic_CpG_SNP_EPIC-data.R README.md README.utf8.md
UMtools.Rproj
data/.Rhistory
data/CR_probes.RData
data/annot_450K.RData
data/annot_EPIC.RData
data/classification_CpG_SNP_450K.RData
data/classification_CpG_SNP_EPIC.RData
data/training_set.RData
data/triallelic_CpG_SNP_450K.RData
data/triallelic_CpG_SNP_EPIC.RData
img/img1.png
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img/img6.png
img/img7.png
img/img8.png
img/img9.png
img/tmp/2SNP.png
img/tmp/CR.png
img/tmp/CR_2.png
img/tmp/CR_SNP.png
img/tmp/K_call1.png
img/tmp/K_call2.png
img/tmp/K_call3.png
img/tmp/K_call4.png
img/tmp/PF.png
img/tmp/PF2.png
img/tmp/SNP_M.png
img/tmp/SNP_U.png
img/tmp/UM.png
img/tmp/bGMM2.png
img/tmp/bGMM3.png
img/tmp/bGMM4.png
img/tmp/bGMM5.png
img/tmp/cometh_mQTL.png
img/tmp/cometh_mQTL2.png
img/tmp/cometh_mQTL3.png
img/tmp/escape.png
img/tmp/jitter_CV.png
img/tmp/jitter_betaval.png
img/tmp/mQTL.png
img/tmp/mQTL2.png
img/tmp/mQTL3.png
img/tmp/x_inact.png
img/tmp/y_cr.png
man/CR_probes.Rd man/GR_to_UM.Rd man/Kcall_CpG.Rd man/UM_plot.Rd man/Visualize_cometh.Rd man/annot_450K.Rd man/annot_EPIC.Rd man/bGMM.Rd man/bimodality_coefficient.Rd man/classification_CpG_SNP_450K.Rd man/classification_CpG_SNP_EPIC.Rd man/compute_BC_CV.Rd man/compute_CV.Rd man/density_jitter_plot.Rd man/export_bigmat.Rd man/import_bigmat.Rd man/kurtosis.Rd man/par_EW_Kcalling.Rd man/skewness.Rd man/train_k_caller.Rd man/training_set.Rd man/triallelic_CpG_SNP_450K.Rd man/triallelic_CpG_SNP_EPIC.Rd
scripts/0_bed_position_logic.ods
scripts/1_bed_preparation_450K.R scripts/1_bed_preparation_EPIC.R
scripts/2_variant_overlap.sh
scripts/3_vcf_preprocessing.R scripts/4_coordinate_check_450K.R scripts/4_coordinate_check_EPIC.R scripts/5_CpGSBE_SNP_classification.R
tutorial/.Rhistory
tutorial/tutorial.R
BenjaminPlanterose/UMtools documentation built on Aug. 19, 2024, 4:54 a.m.