Man pages for ACE
Absolute Copy Number Estimation from Low-coverage Whole Genome Sequencing
| ACEcall | Categorize and plot subclonal, single, and double gains /... |
| ACE-package | ACE package |
| analyzegenomiclocations | Retrieve adjusted copy number information for specific... |
| compresstemplate | Reduce the size of a template data frame |
| copyNumbersSegmented | Segmented data of two tumor samples |
| correlationmatrix | Create a correlation matrix of all samples in a... |
| forcesegmentsontemplate | Custom resegmentation with user-defined segment information |
| getadjustedsegments | Create a data frame with segment information corresponding to... |
| linkvariants | Append columns with total genomic copies and mutant copies to... |
| loopsquaremodel | Create 'squaremodel' summaries for all samples in a... |
| objectsampletotemplate | Converts data of a sample in a QDNAseq-object to a template... |
| postanalysisloop | Batch analysis of samples in a QDNAseq-object for which... |
| runACE | Absolute Copy number Estimation |
| segmentstotemplate | Create a template data frame from input that only provides... |
| singlemodel | Calculate potential fits for a single sample |
| singleplot | Plot an absolute copy number profile for a single sample |
| squaremodel | Calculate potential fits for a single sample using ploidy as... |
| squaremodelsummary | Create a graphical summary of the result of squaremodel... |
| templatefromequalsegments | Create a template data frame with artificial segments of... |
| twosamplecompare | Overlay copy number data of two samples and compare segment... |
