:: DESCRIPTION
Affy6CNV is a pipeline for calling CNVs from Affymetrix 6.0 genotyping array data.
::DEVELOPER
Conrad Lab | Washington University Genetics
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
SNPscan is a web-accessible tool for the analysis of single nucleotide polymorphism (SNP) array data.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Analysis and visualization of chromosomal abnormalities in SNP data with SNPscan.
Ting JC, Ye Y, Thomas GH, Ruczinski I, Pevsner J.
BMC Bioinformatics. 2006 Jan 18;7:25.
:: DESCRIPTION
AffyMAPSDetector stands for Affymetrix MicroArray Probe SNP Detector. It detects the presence of SNPs (Single Nucleotide Polymorphism) in the probes of Affymetrix GeneChipTM expression arrays. However, it can be used to characterize any GeneChipTM with respect to SNPs for which NCBI fully supports gene and SNP annotations (i.e. the organism for which GeneChipTM is desinged and that organism’s genome exists in NCBI nucleotide and SNP database).
DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
BMC Bioinformatics. 2007 Jul 30;8:276.
AffyMAPSDetector: a software tool to characterize Affymetrix GeneChip expression arrays with respect to SNPs.
Kumari S, Verma LK, Weller JW.
:: DESCRIPTION
AffyProbeMiner is to re-define chip definition files (CDFs) for Affymetrix chips taking into account the most recent genomic sequence information. It re-groups probes in Affymetrix chips into probe sets according to a list of non-redundant verified complete coding sequences available in GenBank and RefSeq. Pre-computed CDFs for several chips are available for download.
DEVELOPER
Genomics and Bioinformatics Group
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Liu HF, et al.,
AffyProbeMiner: a web resource for computing or retrieving accurately redefined Affymetrix probe sets.
Bioinformatics. 2007 Sep 15;23(18):2385-90.
:: DESCRIPTION
AffyExtensions is an R package which provides additional, but sometimes experimental, functionality for the analyzing Affymetrix data. Has often served as a place where functionality is developed that is later moved into the affy and affyPLM packages. Because of possible instability (although usually everything is fine) this remains outside BioConductor although it supplements and depends on many of these packages.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
ProbePlus is an analytical tool for analyzing Affymetrix GeneChip® Gene Expression Array data at probe level. It is able to extract CEL file; integrate Perfect Match (PM) and Mis-match (MM) for a probe pair; generate gene expression index (GEI) from the integrated probe intensities of multiple probe pairs in a probe set; and analyze data directly from probe level data without necessity of generating a GEI for a probe set.
::DEVELOPER
Fred Hutchinson Cancer Research Center
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
:: DESCRIPTION
GeneBASE (Gene-level Background Adjusted Selected probe Expression) is a freely available tool for computing Affymetrix Exon array gene-level expression estimates.
GeneBASE consists of the following two programs, ProbeEffects and ProbeSelection
::DEVELOPER
by Karen Kapur, from the Wong Lab and Yi Xing
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Kapur, K., Xing, Y., Ouyang, Z. and Wong, W.H.
Exon array assessment of gene expression.
Genome Biology, 2007 8(5).
:: DESCRIPTION
Genom 2005 is a software to analyse microarrays or other experiment data. It has build in function predictions, pathway analysis, GO trees and a lot more.
Features :
GENOM 2005 is the successor of gEn0M
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
