====== Downloads ======

Downloadable material.

===== Software =====

** Licensing **

The software provided herein is free for academic instruction and research use only. Commercial licenses are available to legal entities, including companies and organizations (both for-profit and non-profit), requiring the software for general commercial use. To obtain a commercial license please, contact us via [[ivan_adzhubey@hms.harvard.edu|e-mail]].

** Disclaimer **

This software is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. The code should not be modified and/or redistributed without the permission of the authors.

^   Item                             ^ File(s) ^
| PolyPhen-2 standalone source code, see INSTALL\\ file included for installation instructions  | {{polyphen-2.2.3r407.tar.gz}}  |

===== Databases =====

^   Item                             ^ File(s)   ^
| PolyPhen-2 bundled databases (6.5G)  | [[ftp://genetics.bwh.harvard.edu/pph2/bundled/polyphen-2.2.3-databases-2021_05.tar.bz2|polyphen-2.2.3-databases-2021_05.tar.bz2]]  |
| Precomputed MLC protein alignments (2.4G)  | [[ftp://genetics.bwh.harvard.edu/pph2/bundled/polyphen-2.2.2-alignments-mlc-2011_12.tar.bz2|polyphen-2.2.2-alignments-mlc-2011_12.tar.bz2]]  |
| Precomputed MultiZ genomic alignments (1.8G)  | [[ftp://genetics.bwh.harvard.edu/pph2/bundled/polyphen-2.2.2-alignments-multiz-2009_10.tar.bz2|polyphen-2.2.2-alignments-multiz-2009_10.tar.bz2]]  |
| PDB/DSSP structural databases snapshot (38G)  | [[ftp://genetics.bwh.harvard.edu/pph2/bundled/polyphen-2.2.3-databases-pdb-dssp-2021_05.tar.bz2|polyphen-2.2.3-databases-pdb-dssp-2021_05.tar.bz2]]  |
| MD5 checksums for all databases tarballs  | [[ftp://genetics.bwh.harvard.edu/pph2/bundled/md5sum.txt|md5sum.txt]]  |


===== Datasets =====

^  Item                          ^ File(s)                                 ^
| HumDiv & HumVar training sets  | [[ftp://genetics.bwh.harvard.edu/pph2/training/|README]]  |
| Whole human exome sequence space annotations  | [[ftp://genetics.bwh.harvard.edu/pph2/whess/|README]]  |

===== Publications =====

^  Item                 ^  Description  ^ File(s)   ^
| Nat Methods **7**, 248-9 (2010)  |  PolyPhen-2 paper  | {{nmeth0410-248.pdf|PDF}} {{nmeth0410-248-s1.pdf|Supplement}}  |
| Nucleic Acids Res **30**, 3894-900 (2002)  |  PolyPhen paper  | {{nar-2002-3894.pdf|PDF}}  |
| Protein Eng **12**, 387-94 (1999)  |  PSIC paper  | {{peds-1999-387.pdf|PDF}}  |