Workflows for detecting short tandem repeat expansions using STRetch (https://github.com/Oshlack/STRetch) on Terra Platform. These workflows are designed for Whole Genome Sequencing starting from mapped bam/cram files. The whole pipeline is divided into three steps as follows:
- Generate STR decoy reference genome (optional)
- Read realignment and generating STR read counts (for each sample in parallel)
- Estimate allele size and One vs all samples outlier test (for each chromosome in parallel)