Tag: Geometric Analysis

AFPredictor – Predicts potential Ice-binding Sites based on Geometric Analysis of the Protein Surface

AFPredictor

:: DESCRIPTION

Given a protein structure (PDB file), AFPredictor will predict potential ice-binding sites based on geometric analysis of the protein surface. It can be used to predict novel antifreeze proteins from 3D structure alone.

::DEVELOPER

DoxeyLab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • WEb Server

:: DOWNLOAD

 NO

:: MORE INFORMATION

Citation

Doxey AC, Yaish MW, Griffith M, McConkey BJ. (2006)
Ordered surface carbons distinguish antifreeze proteins and their ice-binding regions.
Nature Biotechnology, 24:852-5.

GASV / GASVPro 20131001- Geometric Analysis of Structural Variants

GASV / GASVPro 20131001

:: DESCRIPTION

GASV / GASVPro (Geometric Analysis of Structural Variants) is a software for analysis of structural variation from paired-end sequencing and/or array-CGH data. This software has been tested used to find structural variation in both normal and cancer genomes using data from a variety of next-generation sequencing platforms. It can be used to predict structural variants directly from aligned reads in SAM/BAM format.

::DEVELOPER

Raphael Lab

:: SCREENSHOTS

N/A

:: REQUIREMENTS

:: DOWNLOAD

 GASV

:: MORE INFORMATION

Citation

S. Sindi, E. Helman, A. Bashir, B.J. Raphael. (2009)
A Geometric Approach for Classification and Comparison of Structural Variants.
Bioinformatics. 25: i222-i230.

GAP 1.2.14 – Geometric Analysis of Proteins

GAP 1.2.14

:: DESCRIPTION

GAP (Geometric Analysis Programs)   contains two separate program packages that were developed in parallel for the generation and analysis of structure ensembles.

::DEVELOPER

G.P. Gippert

:: SCREENSHOTS

N/A

:: REQUIREMENTS

  • Window with Cygwin / Linux / Mac OsX

:: DOWNLOAD

GAP

:: MORE INFORMATION