siggenes - Multiple Testing using SAM and Efron's Empirical Bayes Approaches
Identification of differentially expressed genes and estimation of the False Discovery Rate (FDR) using both the Significance Analysis of Microarrays (SAM) and the Empirical Bayes Analyses of Microarrays (EBAM).
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multiplecomparisonmicroarraygeneexpressionsnpexonarraydifferentialexpression
8.36 score 59 dependents 87 scripts 7.4k downloadsscrime - Analysis of High-Dimensional Categorical Data Such as SNP Data
Tools for the analysis of high-dimensional data developed/implemented at the group "Statistical Complexity Reduction In Molecular Epidemiology" (SCRIME). Main focus is on SNP data. But most of the functions can also be applied to other types of categorical data.
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5.77 score 42 dependents 60 scripts 11k downloadstrio - Testing of SNPs and SNP Interactions in Case-Parent Trio Studies
Testing SNPs and SNP interactions with a genotypic TDT. This package furthermore contains functions for computing pairwise values of LD measures and for identifying LD blocks, as well as functions for setting up matched case pseudo-control genotype data for case-parent trios in order to run trio logic regression, for imputing missing genotypes in trios, for simulating case-parent trios with disease risk dependent on SNP interaction, and for power and sample size calculation in trio data.
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snpgeneticvariabilitymicroarraygenetics
4.56 score 30 scripts 548 downloadslogicFS - Identification of SNP Interactions
Identification of interactions between binary variables using Logic Regression. Can, e.g., be used to find interesting SNP interactions. Contains also a bagging version of logic regression for classification.
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snpclassificationgenetics
3.60 score 9 scripts 532 downloadsmcbiopi - Matrix Computation Based Identification of Prime Implicants
Computes the prime implicants or a minimal disjunctive normal form for a logic expression presented by a truth table or a logic tree. Has been particularly developed for logic expressions resulting from a logic regression analysis, i.e. logic expressions typically consisting of up to 16 literals, where the prime implicants are typically composed of a maximum of 4 or 5 literals.
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1.48 score 1 dependents 2 scripts 258 downloads