:: DESCRIPTION
BDVAL ( Biomarker Discovery and VALidation ) is an open source project for biomarker discovery in high-throughput datasets.
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Dorff KC, Chambwe N, Srdanovic M, Campagne F.
BDVal: reproducible large-scale predictive model development and validation in high-throughput datasets.
Bioinformatics. 2010 Oct 1;26(19):2472-3. Epub 2010 Aug 11
:: DESCRIPTION
Compo is a software for composite motif discovery using discrete models.
::DEVELOPER
Geir Kjetil Sandve (geirksa@ifi.uio.no), Bioinformatics & Gene Regulation
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
:: DESCRIPTION
SFDR (Stratified False Discovery Rate control) is a program to compute FDR q-values of genome-wide SNP association analysis within each stratum. Especialy the SFDR program is taylored to directly use genome-wide linkage scan results to assign strata. Weighted FDR q-values can be also computed as an alternative to SFDR. To understand the details of FDR, SFDR and WFDR control methods
::DEVELOPER
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: MORE INFORMATION
Citation
Sun, L., Craiu, R.V., Paterson, A.D. & Bull, S.B.
Stratified false discovery control for large-scale hypothesis testing with application to genome-wide association studies.
Genet. Epidemiol. 30, 519-530 (2006)
:: DESCRIPTION
MotifBooster is a software of modeling TF–DNA binding. Different from the widely used weight matrix model, which predicts TF–DNA binding based on a linear combination of position-specific contributions, our approach builds a TF binding classifier by combining a set of weight matrix based classifiers, thus yielding a non-linear binding decision rule.
::DEVELOPER
:: SCREENSHOTS
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation
Hong, P., X. S., Zhou, Q., Lu, X., Liu, J. S., Wong, W. H.
“A Boosting Approach for Motif Modeling Using ChIP-chip Data“.
Bioinformatics.
:: DESCRIPTION
Composition Profiler is a web-based tool that automates detection of enrichment or depletion patterns of individual amino acids or groups of amino acids classified by several physico-chemical and structural properties.
:: SCREENSHOTS
N/A
::DEVELOPER
Vladimir Vacic and Stefano Lonardi (University of California, Riverside), and Vladimir N. Uversky and A. Keith Dunker (Indiana University School of Medicine, Indianapolis).
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Vacic V., Uversky V.N., Dunker A.K., and Lonardi S.
“Composition Profiler: A tool for discovery and visualization of amino acid composition differences“.
BMC Bioinformatics. 8:211. (2007
:: DESCRIPTION
FoldMiner performs structural similarity searches and rapid, unsupervised structural motif discovery. Motifs are used to improve the sensitivity and specificity of the search.
::DEVELOPER
The Brutlag Bioinformatics Group
:: SCREENSHOTS
N/A
:: REQUIREMENTS
:: DOWNLOAD
:: MORE INFORMATION
Citation:
Jessica Shapiro and Douglas L. Brutlag (2004).
FoldMiner: Structural Motif Discovery Using an Improved Superposition Algorithm.
Protein Science 13(1) 278-294.
