Files in GenoGAM

A GAM based framework for analysis of ChIP-Seq data

README.md TODO.Rmd R/GenoGAMSetup-class.R R/GenoGAMFamily-class.R R/estimation.R R/sf.R R/narrowPeaks.R R/misc.R R/GenoGAMDataSet-class.R R/RcppExports.R R/GenoGAMList-class.R R/GenoGAMDataSetList-class.R R/pvals.R R/GenoGAM-class.R R/genogam.R R/diffBinding.R R/GenoGAM-package.R R/broadPeaks.R R/hdf5_handler.R R/readData.R R/cv.R R/plotting.R R/background.R R/zzz.R R/Coordinates-class.R R/GenoGAMSettings-class.R R/peakCalling.R R/helper.R vignettes/GenoGAM.Rmd man/callPeaks.Rd man/GenoGAMList-subsetting.Rd man/plotGenoGAM.Rd man/computeSignificance.Rd man/readData.Rd man/computeRegionSignificance.Rd man/GenoGAMList-class.Rd man/GenoGAMDataSetList-class.Rd man/GenoGAMDataSetList-metrics.Rd man/Coordinates-class.Rd man/GenoGAMDataSet-class.Rd man/GenoGAMDataSet-metrics.Rd man/computeSizeFactors.Rd man/GenoGAM.Rd man/GenoGAMDataSet-subsetting.Rd man/GenoGAMFamily-class.Rd man/makeTestGenoGAMDataSet.Rd man/GenoGAM-class.Rd man/GenoGAMSettings-class.Rd man/makeTestGenoGAMList.Rd man/writeToBEDFile.Rd man/asCoordinates.Rd man/fitGenoGAM.Rd man/makeTestGenoGAMDataSetList.Rd man/makeTestGenoGAM.Rd man/GenoGAMDataSetList-subsetting.Rd tests/testthat.R tests/testthat/test_genogam.R tests/testthat/test_GenoGAMSetup-class.R tests/testthat/test_GenoGAMDataSetList.R tests/testthat/test_GenoGAMSettings-class.R tests/testthat/test_GenoGAM-class.R tests/testthat/test_sizeFactors.R tests/testthat/test_GenoGAMDataSet.R tests/testthat/test_GenoGAMList-class.R tests/testthat/test_cv.R tests/testthat/test_filter.R tests/testthat/test_bugs.R tests/testthat/test_helper.R inst/doc/GenoGAM.R inst/doc/GenoGAM.Rmd