mavis.cluster package¶
Submodules¶
Module contents¶
Sub-package Documentation¶
The cluster sub-package is responsible for merging variants coming from different inputs (i.e. different tools).
Types of Output Files¶
| expected name/suffix | file type/format | content |
|---|---|---|
cluster_assignment.tab |
text/tabbed | |
uninformative_clusters.txt |
text | list of cluster ids that were dropped by annotation proximity filter |
clusters.bed |
bed | cluster positions |
cluster-*.tab |
text/tabbed | computed clusters |
Algorithm Overview¶
Collapse any duplicate breakpoint pairs
Split breakpoint pairs by type
Cluster breakpoint pairs by distance (within a type)
- Create a graph representation of the distances between pairs
- Find cliques up to a given input size (cluster_clique_size)
- Hierarchically cluster the cliques (allows redundant participation)
- For each input node/pair pick the best cluster(s)
Output the clusters and the mapping to the input pairs