Man pages for ananjysong/SCclust
Single Cell Copy Number Analysis and Clustering
| bin_boundaries | Determine bin boundaries |
| bin_counts | make bin count files |
| cbs.segment_all | Generate the segmented profile for each cell. |
| cbs.segment_one | Segment the normalzied bin count profile for individual cell... |
| dropareas | centromere areas annotation |
| example1.varbin.20k | example1.varbin.20k |
| fdr_fisherPV | Compute FDRs for Fisher's test p-values. |
| find_clone | Identify clones in hierarchical tree. |
| findpins | Select features and generate the incidence table. |
| findsmears | Generate the smear tables. |
| find_subclone | Identify subclones in hierarchical tree. |
| gc_one | GC normalization. |
| hclust_tree | Build the hierarchical clustering tree. |
| hg19.chrom.sizes | hg19.chrom.sizes |
| hg19.varbin.gc.20k | hg19.varbin.gc.20k |
| hg19.varbin.gc.50k | hg19.varbin.gc.50k |
| hg19.varbin.gc.5k | hg19.varbin.gc.5k |
| output_viewer | Generate files for the downstream visualization using viewer. |
| preprocess_segfile | Preprocess the segmented copy number profiles |
| simFisher_parallel | Simulate the Fisher's test p-values. |
| varbinGC | Compute GC content. |
