Man pages for brainImageR
A Framework for visualizing gene set enrichment throughout neurodevelopment
| available_areanames | List of areas that are present in a plotted brain slice |
| BrainMap | Internal- Overlaps regional enrichment into a single section |
| brainrange | brainrange |
| Comp-class | Comp keeps track of Spatial Enrichment calculations and... |
| CreateBrain | Overlap spatial enrichment information and anatomical... |
| dat | In vitro temporal data of human neural progenitor cells and... |
| GetGenes | GenGenes |
| hipp | Hippocampal genes using the adult human brain as reference |
| InABA | Quick search for presence of genes in the ABA list |
| PlotBrain | Color and Plot the SGSE image |
| PlotEnrich | PlotEnrich |
| PlotPred | Plot your temporal predictions |
| Pred-class | Pred |
| predict_time | Predict developmental time from gene expression data |
| PValue.onetail | Calculate p-value from bootstrapped sample |
| RandomTissueSummary | Generate a random overlap |
| reColor | Color in the brain images based on enrichment values |
| SpatialEnrichment | Calculate the presence of your gene set within each brain... |
| testEnrich | Calculate significance of gene set enrichment |
| tis_in_region | List of regions that are supported by given tissue |
| tis_set | List of tissues that support a given region in the brain plot |
| TissueSummary | Internal-Identify the number of genes expressed in each... |
| vth | VTH genes identified from Allen Brain Atlas developing human |
| whichtissues | Identify the tissues where a set of genes are expressed |
