# Description of files in M-CAP data directory

Please note that M-CAP only scores rare missense variants: hg19, ENSEMBL 75 missense, ExAC where no super population has frequency above 1%. M-CAP ENSEMBL 75 missing (non-rare) missense values are assumed to be likely benign.


## M-CAP training and testing data files
* exac_training_testing.txt.gz
* exac_testing.txt.gz
* hgmd.train.accessions.txt.gz
* hgmd.test.accessions.txt.gz

We cannot list HGMD variants by chromosome and position, but since these accessions are from HGMD pro 2016, the variants are likely now in the free version of HGMD.

## description of M-CAP score files
* mcap_v1_0.txt.gz - old version of M-CAP raw scores which should no longer be used
* mcap_v1_3.txt.gz - updated M-CAP raw scores
* mcap_v1_4.txt.gz - (RECOMMENDED to use this) contains raw and normalized sensitivity score where v1.3 raw score of 0.025 converted to sensitivity score 0.95, to facilitate interpretation