Man pages for DJFernandes/ABIgeneRMINC
Read, Write, and Analyzing Allen Gene Expression Raw Data
| ABI_resample | Resample volume to ABI space |
| ABI_template_align | Download and register to ABI 50um template |
| adult_gene_expression_analysis | Gene expression spatial enrichment |
| allen_gene_template_download | Download ABI gene templates |
| allen_s2p_template_download | Download ABI 50um template |
| allenVectorTOmincVector | Rotates Allen data to MINC space |
| AllStructureLabels | All Label values, Structures, and Ontologies used in Allen... |
| ANTsify | Convert RMINC and ABIgeneRMINC data to ANTsR images |
| check_registration_quality_png | Resample and check registration quality |
| deANTsify | Turn ANTs image into ABIgeneRMINC data |
| disease_ontology | Disease Ontology |
| find.dev.gene.experiment | List the Allen mouse development experiments associated with... |
| find.gene.experiment | List the Allen adult mouse experiments associated with gene |
| geneFoldChange | Preferential Expresion in target |
| gene_pad_arr | Pad array to fit a different shape |
| gene_resample_resolution | Resample gene expression to a different resolution |
| gene_to_NCBI | gene to NCBI |
| GOrilla_run | Run Gene Ontology enrichment analysis on GOrilla |
| GridStructureLabels | #' Only Label values and Structures used in Grid Annotations... |
| interpolate.gene | Interpolate Gene Expression |
| list.all.allen.genes | List all genes in the Allen Gene Expression Atlas |
| list.all.dev.allen.genes | List all genes in the Allen Developmental Gene Expression... |
| midplane.reflect | Reflect Gene Expression Vector across midplane |
| mincAddANTsAttrs | Add ANTsR attributes to MINC data |
| minc_ants_register | Register two minc volumes using ANTs |
| mincVectorTOallenVector | Rotates MINC data to Allen space |
| mincvol_pad_crop | Pad or crop volume |
| mouse_genes_to_human_genes | Mouse to human genes |
| ont.children | Find Ontology Structure Descendants |
| read.raw.atlas | Read Raw Allen Atlas File |
| read.raw.gene | Read Raw Allen Gene Expression File |
| rescale.abi | Rescale Allen data |
| silentmincwrite | Silently write minc file |
| unionize | Sum Grid Values over Labels |
| write.raw.gene | Write 1D vector data to ABI raw file |
