Files in BatchQC

Batch Effects Quality Control Software

README.md

NAMESPACE

DESCRIPTION

build/vignette.rds

data/example_batchqc_data.rda

data/protein_example_data.rda

R/Circos.R R/batchtest.R R/simulate_data.R R/pca.R R/utils.R R/batchQC.R R/lmfitC.R R/heatmap.R R/sva.R R/shapeAnalysis.R R/correlation.R vignettes/BatchQC_usage_advanced.Rmd vignettes/BatchQC_examples.Rmd vignettes/BatchQCIntro.Rmd man/batchQC_shapeVariation.Rd man/batchQC_condition_adjusted.Rd man/batchqc_heatmap.Rd man/setShinyInputSVA.Rd man/batchQC.Rd man/batchqc_correlation.Rd man/makeSVD.Rd man/batchqc_pca_svd.Rd man/setShinyInputOrig.Rd man/lmFitC.Rd man/batchQC_svregress_adjusted.Rd man/BatchQCout-class.Rd man/plot_genewise_moments.Rd man/getShinyInput.Rd man/combatPlot.Rd man/batchQC_analyze.Rd man/batchQC_num.sv.Rd man/plot_samplewise_moments.Rd man/setShinyInputSVAf.Rd man/batchQC_filter_genes.Rd man/batchqc_pc_explained_variation.Rd man/batchqc_corscatter.Rd man/getShinyInputSVAf.Rd man/batchQC_sva.Rd man/getShinyInputOrig.Rd man/rnaseq_sim.Rd man/batchqc_circosplot.Rd man/setShinyInputCombat.Rd man/getShinyInputSVA.Rd man/log2CPM.Rd man/getShinyInputSVAr.Rd man/example_batchqc_data.Rd man/gnormalize.Rd man/batchQC_fsva_adjusted.Rd man/protein_example_data.Rd man/setShinyInput.Rd man/batchqc_explained_variation.Rd man/plotPC.Rd man/batchtest.Rd man/pcRes.Rd man/setShinyInputSVAr.Rd man/getShinyInputCombat.Rd man/batchqc_pca.Rd tests/testthat.R tests/testthat/test_batchQC.R

inst/NEWS.Rd

inst/CITATION

inst/doc/BatchQC_examples.html

inst/doc/BatchQC_usage_advanced.pdf inst/doc/BatchQC_usage_advanced.Rmd

inst/doc/BatchQCIntro.html

inst/doc/BatchQC_examples.Rmd inst/doc/BatchQCIntro.Rmd inst/doc/BatchQC_usage_advanced.R inst/shiny/BatchQC/ui.R inst/shiny/BatchQC/server.R

inst/rmarkdown/templates/batchqc/template.yaml

inst/rmarkdown/templates/batchqc/skeleton/skeleton.Rmd

inst/reports/batchQC.html

inst/reports/batchqc_report.Rmd

inst/reports/libs/bootstrap/javascript/jquery-1.10.1.min.js

inst/reports/libs/bootstrap/javascript/bootstrap.min.js

inst/reports/libs/bootstrap/javascript/user.js

inst/reports/libs/bootstrap/img/glyphicons-halflings.png

inst/reports/libs/bootstrap/img/glyphicons-halflings-white.png

inst/reports/libs/bootstrap/css/bootstrap-responsive.min.css

inst/reports/libs/bootstrap/css/user.css

inst/reports/libs/bootstrap/css/bootstrap.min.css

inst/example/batchqc_pipeline.R

inst/example/batchqc_combat_adj_report.html

inst/example/batchqc_report.html

BatchQC documentation built on Nov. 8, 2020, 8:30 p.m.