Files in goushixue/QRseq

Quickly RNA-seq Analysis Platform

.DS_Store

.Rbuildignore

.gitignore

DESCRIPTION

Dockerfile

LICENSE

NAMESPACE

QRAP.Rproj

R/data_preprocessing.R R/fortify_data.R R/mainServer.R R/mainUI.R R/plotting_functions.R R/runApp.R R/runing_functions.R R/utilities.R README.md

inst/.DS_Store

inst/extdata/.DS_Store

inst/extdata/example.rds

inst/extdata/gds_datasets.rds

inst/extdata/species.rds

inst/markdown/.DS_Store

inst/markdown/documents.md inst/markdown/installation.md

inst/markdown/www/.DS_Store

inst/markdown/www/images/.DS_Store

inst/markdown/www/images/workflow.tiff

inst/shiny/.DS_Store

inst/shiny/QRAP.Rproj

inst/shiny/footer.html

inst/shiny/global.R

inst/shiny/home.html

inst/shiny/modules/1-server-get-start.R inst/shiny/modules/1-ui-get-start.R inst/shiny/modules/10-server-wgcna-prepare-data.R inst/shiny/modules/10-ui-wgcna-prepare-data.R inst/shiny/modules/11-server-wgcna-detect-module.R inst/shiny/modules/11-ui-wgcna-detect-module.R inst/shiny/modules/12-server-wgcna-module-trait.R inst/shiny/modules/12-ui-wgcna-module-trait.R inst/shiny/modules/12.1-server-wgcna-scatter.R inst/shiny/modules/12.1-ui-wgcna-scatter.R inst/shiny/modules/12.2-server-wgcna-expression.R inst/shiny/modules/12.2-ui-wgcna-expression.R inst/shiny/modules/13-server-gProfiler.R inst/shiny/modules/13-ui-gProfiler.R inst/shiny/modules/14-server-cluster_ORA.R inst/shiny/modules/14-ui-cluster_ORA.R inst/shiny/modules/15-server-cluster_GSEA.R inst/shiny/modules/15-ui-cluster_GSEA.R inst/shiny/modules/16-server-kegg-pathview.R inst/shiny/modules/16-ui-kegg-pathview.R inst/shiny/modules/17-server-ppi-network.R inst/shiny/modules/17-ui-ppi-network.R inst/shiny/modules/18-server-genie3-network.R inst/shiny/modules/18-ui-genie3-network.R inst/shiny/modules/19-server-summarize-gene.R inst/shiny/modules/19-ui-summarize-gene.R inst/shiny/modules/2-server-condition.R inst/shiny/modules/2-ui-condition.R inst/shiny/modules/20-server-summarize-function.R inst/shiny/modules/20-ui-summarize-function.R inst/shiny/modules/3-server-pca.R inst/shiny/modules/3-ui-pca.R inst/shiny/modules/4-server-hierarchical-cluster.R inst/shiny/modules/4-ui-hierarchical-cluster.R inst/shiny/modules/5-server-sample-distance.R inst/shiny/modules/5-ui-sample-distance.R inst/shiny/modules/6-server-sample-correlation.R inst/shiny/modules/6-ui-sample-correlation.R inst/shiny/modules/7-server-differential-analysis.R inst/shiny/modules/7-ui-differential-analysis.R inst/shiny/modules/8-server-degs-patterns.R inst/shiny/modules/8-ui-degs-patterns.R inst/shiny/modules/9-server-expression-visualization.R inst/shiny/modules/9-ui-expression-visualization.R inst/shiny/modules/CopyOf11-server-wgcna-detect-module.R inst/shiny/modules/CopyOf11-ui-wgcna-detect-module.R inst/shiny/modules/ui-home-introduction.R inst/shiny/server.R inst/shiny/ui.R

inst/shiny/www/.DS_Store

inst/shiny/www/Kegg_dir/.gitkeep

inst/shiny/www/images/.DS_Store

inst/shiny/www/images/carousel/image-1.jpg

inst/shiny/www/images/carousel/image-2.jpg

inst/shiny/www/images/carousel/image-3.jpg

inst/shiny/www/images/carousel/image-4.jpg

inst/shiny/www/images/carousel/image-5.jpg

inst/shiny/www/images/carousel/image-6.jpg

inst/shiny/www/images/demo/.DS_Store

inst/shiny/www/images/demo/GSEA_Plot.png

inst/shiny/www/images/demo/ORA_dotplot.png

inst/shiny/www/images/demo/corr_heatmap.jpg

inst/shiny/www/images/demo/deg-pattern.png

inst/shiny/www/images/demo/design-table.png

inst/shiny/www/images/demo/dist_heatmap.png

inst/shiny/www/images/demo/expression_plot.png

inst/shiny/www/images/demo/gProfiler_Plot.png

inst/shiny/www/images/demo/genie3_network_plot.png

inst/shiny/www/images/demo/hc_heatmap.png

inst/shiny/www/images/demo/input_table.jpg

inst/shiny/www/images/demo/pathview.png

inst/shiny/www/images/demo/pca_plot.png

inst/shiny/www/images/demo/ppi_network.jpg

inst/shiny/www/images/demo/summarize_function.png

inst/shiny/www/images/demo/summarize_gene.png

inst/shiny/www/images/demo/volcano_plot.png

inst/shiny/www/images/demo/wgcna_dendrogram.png

inst/shiny/www/images/demo/wgcna_gsmm.png

inst/shiny/www/images/demo/wgcna_heatmap.png

inst/shiny/www/images/demo/wgcna_mtrelationship.png

inst/shiny/www/images/demo/wgcna_power.png

inst/shiny/www/images/demo/wgcna_table.png

inst/shiny/www/images/discard/data-quality-assessment.png

inst/shiny/www/images/discard/differential-expression-analysis.png

inst/shiny/www/images/discard/fiunctional-analysis.png

inst/shiny/www/images/discard/get-start-button.jpeg

inst/shiny/www/images/discard/network-analysis.png

inst/shiny/www/images/discard/wgcna-analysis.png

inst/shiny/www/images/features.jpg

inst/shiny/www/images/logo_img.png

inst/shiny/www/images/page_demo.jpg

inst/shiny/www/images/workflow.jpg

inst/shiny/www/style/CopyOfstyle.css

inst/shiny/www/style/customs.js

inst/shiny/www/style/layui.css

inst/shiny/www/style/style.css

man/Run.DESeq2.Rd man/barplotResults.Rd man/degPlotCluster.Rd man/dotplotResults.Rd man/download.GEO.Rd man/fortify_results.Rd man/get.DEGs.Rd man/get_supported_species.Rd man/ggnet3.Rd man/ggtableResults.Rd man/load.DEGs.Rd man/load.REGs.Rd man/mainServer.Rd man/mainUI.Rd man/plotCorScatter.Rd man/preview.GEO.Rd man/publish_gostdot.Rd man/publish_gostplot2.Rd man/publish_gosttable2.Rd man/read_files.Rd man/remove.Batch.Rd man/ridgeplot2.Rd man/set_anno_color.Rd man/startQRAP.Rd man/subset_Tab.Rd man/transform_value.Rd man/upload.data.Rd

goushixue/QRseq documentation built on July 9, 2023, 9:28 a.m.