Files in DRIMSeq

Differential transcript usage and tuQTL analyses with Dirichlet-multinomial model in RNA-seq

README.md R/dmSQTL_estimateTagwisePrecision.R R/dm_core_lik.R R/dmSQTL_estimateCommonPrecision.R R/dm_profileLikModeration.R R/dmSQTL_fit.R R/class_dmDSdata.R R/class_MatrixList.R R/dmDS_CRadjustment.R R/class_dmDSprecision.R R/dm_core_colorb.R R/dmDS_estimateCommonPrecision.R R/dm_plotPrecision.R R/dm_CRadjustmentManyGroups.R R/class_dmDStest.R R/dm_CRadjustmentRegression.R R/dm_fitManyGroups.R R/dmSQTL_profileLik.R R/DRIMSeq.R R/dmDS_fit.R R/dm_core_score.R R/dm_CRadjustmentOneGroup.R R/class_dmSQTLdata.R R/dmSQTL_permutations.R R/dmDS_profileLik.R R/dmDS_estimateTagwisePrecision.R R/class_dmSQTLprecision.R R/dm_core_deviance.R R/dm_fitRegression.R R/dm_plotProportions.R R/dm_fitOneGroup.R R/dm_LRT.R R/dmSQTL_CRadjustment.R R/dm_plotPvalues.R R/class_dmDSfit.R R/dm_estimateMeanExpression.R R/dmDS_filter.R R/dm_core_Hessian.R R/dm_plotData.R R/class_show_utils.R R/class_dmSQTLtest.R R/class_dmSQTLfit.R R/dmSQTL_filter.R man/dmDSdata.Rd man/dmDStest-class.Rd man/dmSQTLprecision-class.Rd man/MatrixList-class.Rd man/dm_plotProportions.Rd man/dmSQTLdata.Rd man/dmSQTLfit-class.Rd man/dm_plotDataDSInfo.Rd man/dmFilter.Rd man/plotProportions.Rd man/dmDSdata-class.Rd man/dmFit.Rd man/dmDSfit-class.Rd man/dmSQTLtest-class.Rd man/plotPValues.Rd man/dmSQTLdata-class.Rd man/plotPrecision.Rd man/plotData.Rd man/dmDSprecision-class.Rd man/dmPrecision.Rd man/dmTest.Rd tests/testthat.R tests/testthat/test_total_switch.R tests/testthat/test_gene_filter.R tests/testthat/test_lik_score.R tests/testthat/test_MatrixList.R tests/testthat/test_dm_adjustment.R inst/doc/DRIMSeq.R inst/doc/DRIMSeq.pdf