Please see the official site for MendelScan, on GMT, for detailed information.
Please see the releases page for official releases.
You can build the Java source by running ant compile
or a JAR file by running ant dist
.
You can run the JAR file on the commandline like any Java JAR file, e.g. java -jar ./MendelScan.jar
.
Javadoc is published on the GitHub page.
Included in the repository is an example data set using 1000 Genomes data.
tar -zxvf example_data.tar.gz
cd example_data
java -jar MendelScan.jar score variants.vcf \
--vep-file annotation.vep --ped-file family.ped --gene-file gene-expression.txt \
--output-file mendelscan.tsv --output-vcf mendelscan.vcf