Files in perishky/meffil
Efficient algorithms for DNA methylation

DESCRIPTION

LICENSE

NAMESPACE

R/add-surrogate-variables.r R/adjust.r R/autosomal-sites.r R/background-correct.r R/basenames.r R/bedgraph.r R/cell-count-qc-plots.r R/cell-counts.r R/cell-type-references.r R/cell-type-specific-methylation.r R/check-data-frame.r R/cnv-matrix.r R/cnv-references.r R/cnv.r R/create-qc-object.r R/create-samplesheet.r R/design-matrix.r R/dups.r R/dye-bias-correct.r R/estimate-cell-counts.r R/ewas-old.r R/ewas-report.r R/ewas-variable-summaries.r R/ewas.r R/extract-beadnum.r R/extract-controls.r R/extract-detection-pvalues.r R/extract-from-samplesheet.r R/extract-genotypes.r R/features.r R/gds.r R/get-beta.r R/globals.r R/handle-outliers.r R/impute-matrix.r R/isva.r R/knit-report.r R/load-controls.r R/load-detection-pvalues.r R/load-raw-betas.r R/manifest.r R/mclapply.r R/methylation-pcs.r R/most-variable.r R/msg.r R/normalization-report.from.betas.r R/normalization-report.r R/normalize-dataset.r R/normalize-quantiles.r R/normalize-sample.r R/normalize-samples.r R/plot-ewas.r R/plot-pc-fit.r R/qc-report.r R/qc.r R/read-samplesheet.r R/rg-to-mu.r R/rg.r R/save-detection-pvalues.r R/simplify-variable.r R/site-subsets.r R/snp-betas.r R/snp-concordance.r R/winsorize.r

changes.txt

data-raw/andrews-bakulski-reference.r

data-raw/chen-table-e2.csv

data-raw/combined-cord-reference.r data-raw/dlpfc-reference.r

data-raw/epic-excludes.txt

data-raw/geo.r data-raw/gervin-lyle-reference.r data-raw/globals.r data-raw/gse167998-reference.r data-raw/gse35069-references.r data-raw/gse68456-reference.r data-raw/idoloptimized-references.r data-raw/load-450k-manifest.r data-raw/load-epic-manifest.r data-raw/load-epic2-manifest.r data-raw/load-mouse-manifest.r data-raw/minfiEPIC.r data-raw/saliva-reference.r docs/meffil.pdf

docs/meta-analysis.png

docs/snp-names.txt

docs/workflow.png

inst/cnv.rda

inst/featuresets.rda

inst/probes.rda

inst/references.rda

tests/AdditionalFile3.csv

tests/GSE86831.rmd

tests/Makefile

tests/cnv.rmd tests/complex-demo.rmd tests/cord.rmd tests/dataset-450k-demo.r tests/dataset-450k-demo.rmd tests/dataset-450k-lead.r tests/dataset-450k-lead.rmd tests/dataset-epic-demo.r tests/dataset-epic-demo.rmd tests/dataset-epic2-demo.r tests/dataset-epic2-demo.rmd tests/epic-demo.rmd tests/epic2-demo.rmd tests/ewas.rmd

tests/fix-minfi-control-matrix.patch

tests/gds.rmd

tests/hannum.txt

tests/html/450k-and-epic.html

tests/html/450k-demo.html

tests/html/GSE86831.html

tests/html/complex-demo.html

tests/html/complex-demo.md

tests/html/cord.html

tests/html/epic-demo.html

tests/html/epic2-demo.html

tests/html/epic2-demo.md

tests/html/ewas.html

tests/html/gds.html

tests/html/minfi.html

tests/html/random.html

tests/knit.r tests/minfi.rmd tests/random.rmd

todo.txt

perishky/meffil documentation built on March 20, 2024, 1:56 a.m.

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perishky/meffil
Efficient algorithms for DNA methylation

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Efficient algorithms for DNA methylation

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perishky/meffil Efficient algorithms for DNA methylation

Files in perishky/meffil Efficient algorithms for DNA methylation

R Package Documentation

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perishky/meffil
Efficient algorithms for DNA methylation

Files in perishky/meffil
Efficient algorithms for DNA methylation