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For external users, follow the instruction at [[EPACTS]] page, summarized below.
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.v2.2.0.20121026.tar.gz (94MB) http://www.sph.umich.edu/csg/kang/epacts/download/epacts_v2.12.noref_binary.2012_10_01.tar.gz (101MB)
*Download EPACTS binary at http://www.sph.umich.edu/csg/kang/epacts/download/epacts.v2.2.0.20121026.tar.gz (94MB)
*Uncompress EPACTS package to the directory you would like to install
*Uncompress EPACTS package to the directory you would like to install
tar xzvf epacts_v2.12.noref_binary.2012_10_01.tar.gz
tar xzvf epacts.v2.2.0.20121026.tar.gz
*Download the reference FASTA files from 1000 Genomes FTP automatically by running the following commands<br>
*Download the reference FASTA files from 1000 Genomes FTP automatically by running the following commands<br>
<pre>cd epacts2.1/
<pre>cd epacts.v2.2.0.20121026/
./ref_download.sh
./ref_download.sh
(For advanced users, to save time for downloading the FASTA files (~900MB), you may copy a local copy of GRCh37 FASTA file and the index file to ${EPACTS_DIR}/ext/ref/)
(For advanced users, to save time for downloading the FASTA files (~900MB), you may copy a local copy of GRCh37 FASTA file and the index file to ${EPACTS_DIR}/ext/ref/)
*Perform a test run by running the following command
*Perform a test run by running the following command
epacts.v2.2.0.20121026/example/test_run_epacts.sh
=== For Local Users in CSG ===
=== For Local Users in CSG ===
