Man pages for bioinfo16/RIPAT
Retroviral Integration Pattern Analysis Tool (RIPAT)
| annoByCGC | Annotate integration sites by cancer-related genes. |
| annoByCpG | Annotate integration sites by CpG sites. |
| annoByGene | Annotate integration sites by genes and TSSs. |
| annoByRepeat | Annotate integration sites by repeats and microsatellites. |
| annoByVar | Annotate integration sites by clinical variants. |
| blast_gene | Integration site annotation by gene data |
| blast_obj | Retroviral vector integration site object |
| compareCases | Annotate integration sites by genes and TSSs. |
| cpg_exam_db | Data file for annoByCpG vignette |
| drawingKaryo | Draw the karyogram plot. |
| gene_exam_db | Data file for annoByGene vignette |
| integPatternByChr | Retroviral integration pattern on chromosomes |
| makeData | Make data files for RIPAT. |
| makeDocument | Make the result object and document. |
| makeExpSet | Make the retroviral vector integration site object. |
| makeExpSet2 | Make the retroviral vector integration site object. |
| makeInputObj | Make the retroviral vector integration site object. |
| makeInputObj2 | Make the retroviral vector integration site object. |
| makeRanSet | Random data of viral vector integration site |
| micro_exam_db | Data file for annoByRepeat vignette |
| ranSetGenerator | Random data of viral vector integration site |
| repeat_exam_db | Data file for annoByRepeat vignette |
| tss_exam_db | Data file for annoByGene vignette |
| var_exam_db | Data file for annoByVar vignette |
