Man pages for bioinfo-pf-curie/HiTC
High Throughput Chromosome Conformation Capture analysis
| binningC | Windowing of high-throughput 'C' contact matrix |
| CQC | Quality Control for high-throughput 'C' experiment |
| directionalityIndex | Directionality index calculation |
| discretize | Transform matrix of counts data into discrete matrix |
| exportC | Export 'HTCexp' object |
| export.my5C | Export 'HTCexp' object to my5C website format |
| extractRegion | Extract a subset of the HTCexp object |
| getAnnotatedRestrictionSites | Annotation of restriction sites |
| getExpectedCounts | Estimate expected interaction counts of a High-Throughput C... |
| getPearsonMap | Pearson correlation map |
| getRestrictionFragmentsPerChromosome | Get a list of DNA restriction fragments |
| HiTC-internal | Internal HiTC functions |
| HTCexp-class | Class 'HTCexp' |
| HTClist-class | Class 'HTClist' |
| importC | Import high-htroughput 'C' data |
| import.my5C | Import data from my5C webtool |
| intervalsDist | intervalsDist |
| mapC | Visualize 'C' ontact map |
| Nora_5C | HiTC - 5C data |
| normICE | Iterative Correction of Hi-C data (ICE) |
| normLGF | Local Genomic Feature (LGF) normalization |
| pca.hic | Perform Principle Component Analysis on Hi-C contact map |
| removeIntervals | Remove intervals from HTCexp object |
| setGenomicFeatures | Annotation of Hi-C contact map |
| setIntervalScale | Set x and y interval of the HTCexp object |
