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Jump to navigationJump to search→1. Download and install EPACTS
<br> Once installed, test out the software by running a quick example using the test data provided in the "example" directory. The example VCF and PED files are:
<br> Once installed, test out the software by running a quick example using the test data provided in the "example" directory. The example VCF and PED files are:
<pre>$ epacts2.1/example/1000G_exome_chr20_example_softFiltered.calls.vcf.gz
<pre>$ epacts2.1/example/1000G_exome_chr20_example_softFiltered.calls.vcf.gz
For external users, follow the instruction at [[EPACTS]] page, summarized below.
* Download EPACTS binary at http://www.sph.umich.edu/csg/kang/epacts/download/epacts_v2.1.noref_binary.2012_07_03.tar.gz (94MB)
* Uncompress EPACTS package to the directory you would like to install
tar xzvf epacts_v2.1.noref_binary.2012_07_03.tar.gz
* Download the reference FASTA files by running the following commands
cd epacts2.1/
./ref_download.sh (Or copy the FASTA and index file locally you have to ${EPACTS_DIR}/ext/ref/)
* Perform a test run by running the following command
example/test_run_epacts.sh
$ epacts2.1/example/1000G_dummy_pheno.ped
$ epacts2.1/example/1000G_dummy_pheno.ped
