Man pages for cavei/guessMyLOI
Guess Loss Of Imprinting
| callHetero | Compute Call if Hetero |
| callHeteroSNPperGene | Call Hetero per gene |
| clipToValues | Clip to values |
| collapseObject | Collapse object |
| computeAlleleRatios | Compute Allelic Rations |
| computeHeteroScore | Compute Hetero Score |
| extractFirstSnpPositionByGene | Extract First Snp Position By Gene |
| filter_by_gene | Filter By gene |
| filter_by_gene.ratios | Filter By gene |
| filter_by_genes | Filter By genes |
| filter_by_overall_depth | Filter By overal Depth |
| filterBySample | Filter By Sample |
| filter_columns | Filter Columns |
| filter_matrix_by_genes | Filter Matrix By gene |
| filter_rows | Filter Rows |
| filterSamples | Filter Samples |
| guessApp | Run GuessMyLoi app |
| guessXCI | Guess X Chromosome Inactivation |
| input_function | Read allelic expression file |
| mergeHeteroGeneObjs | Merge HeteroGene Objects |
| nonUsedGenes | Get Genes With No SNPs |
| plotAllelicImbalance | Make a plot of the LOI genes |
| plotAllelicRatios | Make a plot of the allelic ratios |
| plotChrXwithSNPs | Make a plot of CHR and SNPs |
| plot_guessedLOI | Make a plot of the LOI genes |
| processData | Create X Y linked SNP's allelic expression |
| ratioInString | Create a string representing the ration in string |
| removeHg38PsudosomalRegion | Remove Human pseudosomal regions |
| removeM38PsudosomalRegion | Remove Mouse Pseudosomal Regions |
| setNA2FALSE | set NA to FALSE |
| setNA2TRUE | Set NA 2 TRUE |
| sortByGenes | Sort By Gene |
| sortGeneByPosition | Sort Gene By Position |
