- Deprecated 1000G/NHLBI-based putative germline filter and transitioned to ExAC-based filtering
- Use a bedtools-based method to annotate trinucleotide context in MAF
- Cleaned up code and consolidated static files into a single Rdata object for ease of use
- Included a test MAF (TCGA UCEC) as an example input MAF
- By default will use homopolymer QC filter but can be explicitly turned off
- All other filters are off by default