Affymetrix
Bio::Affymetrix::CDF is a Perl module to parse Affymetrix CDF files. SYNOPSIS use Bio::Affymetrix::CDF; # Parse the CDF file my $cdf=new Bio::Affymetrix::CDF({"probemode"=>0}); $cdf->parse_from_file("foo.cdf"); # Find some fun facts about this chip type print...
Platforms: *nix
License: Freeware | Size: 64.51 KB | Download (120): Bio::Affymetrix::CDF Download |
Using Affymetrix CEL files as its source, this script combines quantile normalized SNP A and B probe intensities for each marker into a theta value, then calculates B-Allele Frequencies for each marker. For information on accessing B Allele Frequencies for Illumina data,
Platforms: Mac
License: Freeware | Size: 1.02 KB | Download (43): Affymetrix B Allele Frequency Calculation Download |
This script imports Affymetrix DMET data. Hemizygous markers are converted to homozygous markers, and tri-allelic markers are converted into two columns, each containing the major allele and one of the minor alleles. A DMET marker map (see below) can be selected after selecting the DMET report...
Platforms: Mac
License: Freeware | Size: 10.24 KB | Download (40): Import Affymetrix DMET Report Download |
We attempt to reproduce and efficiently implement in MATLAB publicly available methods of Affymetrix MAS 5 and GCOS 1.2 software that perform single-array and comparison analysis for Affymetrix data given by CEL and CDF files and create corresponding CHP data structures:1. CHP data structure is...
Platforms: Matlab
License: Freeware | Size: 20.48 KB | Download (45): Absolute and Comparison Analysis for Affymetrix Data Download |
This user interface allows a user to load some Affymetrix data in an Excel file and perform some basic operations on it - log transform, log ratio, normalization, noise reduction, filtering, PCA and clustering, in addition to some visualizations like profile plots, boxplots and matrix...
Platforms: Matlab
License: Freeware | Size: 460.8 KB | Download (44): Improved GUI for Affymetrix gene expression analysis Download |
Genom 2005 is a feature rich and user friendly application for analysing array-experiments (e.g. from provider Affymetrix). It includes normalisation of raw data, additional gene information official gene names, location, function prediction, sequences, database references (GeneOntology,...
Platforms: Windows
License: Demo | Cost: $1229.00 USD | Size: 2.3 MB | Download (142): GENOM 2005 Download |
SNP Analyser was developed as an easy-to-use and useful utility for the efficient analysis and management of Affymetrix SNP DMET Data analysis.
SNP Analyser is a software that was designed with the help of the Java programming language.
Platforms: Windows
License: Freeware | Download (424): SNP Analyser Download |
The Integrated Genome Browser (IGB, pronounced Ig-Bee) is an interactive, zoomable, scrollable software program you can use to visualize and explore genome-scale data sets, such as tiling array data, next-generation sequencing results, genome annotations, microarray designs, and the sequence...
Platforms: Windows
License: Freeware | Size: 8.4 MB | Download (418): Integrated Genome Browser Download |
GNomEx is Genomic LIMS and Analysis Project Center designed by the Huntsman Cancer Institute for use by microarray and next generation sequencing core facilities and large research laboratories. KWs: Illumina, Affymetrix, Agilent, MAGE, MySQL/Flex...
Platforms: Windows
License: Freeware | Size: 26.8 MB | Download (446): GNomEx Download |
Avenzoar is a one-year exploration of renal cell carcinoma morphology and its related single nucleotide polymorphisms (SNPa) as a method of automating diagnosis of cancer by using a computer-aided decision tree controlled by analytical statistics. Features Detects and comes to a...
Platforms: *nix
License: Freeware | Size: 54.77 MB | Download (32): Avenzoar Digital Pathology Tool Download |