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downloads [2023/05/05 14:47] (current) ivan
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 +====== 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}}  |
  

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