ASSIsT is a tool for efficient filtering of Illumina Infinium/BeadExpress based SNP markers. This software can analyse different kind of experimental populations: Cross Pollinated (CP – F1), Back Cross (BC), F2 and collections of unrelated individuals (Germplasm). It is possible to export the filtered data in several formats according to the most widely used software for marker-trait association analysis.
git clone https://github.com/diegomic/ASSIsT.git
cd ASSIsT
python ASSisT_1_02.py
ASSIsT is released under GPLv3. The latest source code is freely available at github. The source code is a collection of Python scripts. They can be executed from any operating system with Python 2.7 installed. Required dependencies:
- PyQt4 (v.4.8)
- NumPy (v.1.8 or higher)
- matplotlib (v.1.3 or higher)
- SciPy (v.0.14 or higher)
The latest precompiled Windows executables is distributed as a zip archive that can be downloaded here. It not necessary to install ASSIsT, just extract the ASSIsT_Windows.xx.zip archive (xx is the version number).
An example dataset and a reference manual are freely available at github available for download.
Precompiled binary for Windows are available for version 1.00 and version 1.01.
Diego Micheletti and Luca Bianco
Di Guardo M, Micheletti D, Bianco L, Koehorst-van Putten HJJ, Longhi S, Costa F, Aranzana MJ, Velasco R, Arús P, Troggio M, van de Weg EW (2015) ASSIsT: An Automatic SNP ScorIng Tool for in- and out-breeding species. Bioinformatics, DOI: 10.1093/bioinformatics/btv446