| CNVnator |
cnvnator -root file.root [-chrom name1 ...] -call bin_size [-ngc] |
CNV CALLING |
| CNVnator |
cnvnator -root file.root [-chrom chr_name1 ...] -view bin_size [-ngc] |
Visualizing specified regions. |
| CNVnator |
cnvnator -root file.root [-chrom name1 ...] -stat bin_size |
Calculating statistics for CNVnator. This step must be completed before proceeding to partitioning and CNV calling. |
| CNVnator |
cnvnator -root file.root [-chrom name1 ...] -partition bin_size [-ngc] |
RD signal partitioning |
| CNVnator |
cnvnator [-genome name]-root out.root [-chrom name ...] -merge file1.root ... |
Merging root files. Merging can be used when combining read mappings extracted from multiple files. Note, histogram generation, statistics calculation, signal partitioning, and CNV calling should be completed/redone after merging. |
| CNVnator |
cnvnator [-genome name] -root file.root [-chrom name1 ...] -his bin_size [-d dir] |
Generating a histogram by using CNVnator |
| CNVnator |
cnvnator -root file.root -genotype bin_size [-ngc] |
Genotyping genomic regions |