Man pages for goushixue/QRseq
Quickly RNA-seq Analysis Platform
| barplotResults | Barplot of enriched results |
| degPlotCluster | plot the results of DE gene expression pattern |
| dotplotResults | Dotplot of enriched results |
| download.GEO | Download GEO Datasets or supplementary files |
| fortify_results | convert enrichResult or compareClusterResult to a data.frame... |
| get.DEGs | Get A List Of Differentially Expressed Genes |
| get_supported_species | Get support species names |
| ggnet3 | generate gene network graph of GENIE3 (modified from... |
| ggtableResults | ggTable of enriched results |
| load.DEGs | Loadding DEGs from local directory |
| load.REGs | Loadding REGs from local directory |
| mainServer | create the mainly server functions |
| mainUI | Build shiny UI page |
| plotCorScatter | scatter plot of two samples or two group samples with... |
| preview.GEO | Read in and preprocessing download files |
| publish_gostdot | gprofiler2.dotplot of enriched results |
| publish_gostplot2 | Plotting enriched results of gprofiler2, this function was... |
| publish_gosttable2 | Plotting enriched results of gprofiler2, this function was... |
| read_files | Function to import files by automatically identify delimiters |
| remove.Batch | Remove batch effects from data |
| ridgeplot2 | ridgeplot for gsea enriched results (modified from... |
| Run.DESeq2 | Prepare and Run DESeq |
| set_anno_color | Auto set the annotation colors for pheatmap |
| startQRAP | Start the QRAP shiny App |
| subset_Tab | Subset The Experiment design Table and keep the order |
| transform_value | Transform normalized expression matrix by vst or rlog |
| upload.data | Load in data sets and creat dataframe of Reads Number |
