MCHap
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Filtering options or tool
Consider options or separate tool for filtering based on reported metrics.
Add filtering options to existing tools:
- Simpler as less double handling of values
- Adds additional complexity to complex programs
- Would probably result in running program twice (once with filters and once without)
New filtering tool:
- Double handling of values, filtering a genotype/allele requires updating counts/freqs in other fields
- Would need to be specific to MCHap reported values
- Complexity is isolated to new tool