Man pages for PriceLab/TrenaViz
TrenaViz
| addEventHandlers | add shiny event handlers |
| BindingSitesManager | import shiny |
| createApp | Create a runnable shiny app |
| createMotifModelBuilderPage | create and return the control-rich UI |
| createPage | create and return the control-rich UI |
| createServer | Create the shiny server |
| createUI | Create the user interface |
| displayPage | display the page |
| FimoModelWidget | Create an FimoModelWidget object |
| GeneGeneExpressionPlotter | import shiny |
| matchMotifInSequence | run the MultiMethodMotifMatcher |
| ModuleExample | import shiny |
| MotifsInRegionsBuilder | import shiny |
| MultiMethodMotifMatcher | import trena import motifmatchr import universalmotif import... |
| NetworkView | import shiny import cyjShiny import TrenaProject import graph |
| removeLogos | remove the image |
| renderLogos | show the control-rich UI |
| setGenes | specify the pair of genes, typically a TF and a targetGene |
| setGenome | specity the genome build: hg38, mm10, ... |
| setGenomicRegion | specify the one or more genomic regions in which to look for... |
| setMatrixForPlotting | specity the expression matrix |
| setOrganism | specity the organism: Hsapiens, Mmusculus, ... |
| setRegulatoryRegions | areas of (currently) open chromatin |
| setTargetGene | supply the name of the regulated gene |
| setTF | specity the tf (transcription factor) to work on |
| setTrenaProject | supply tissue-specific data |
| standardizeMotifMatchedTable | standardize motif-matched regions from footprint databases... |
| TrenaViz | Create an TrenaViz object |
