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Platform Design Info for The Manufacturer's Name HT_MG-430A.
Platform Design Info for Affymetrix RheGene-1_1-st.
Platform Design Info for Affymetrix HuGene-1_1-st-v1.
This package provides a set of annotation maps describing the entire Gene Ontology assembled using data from PANTHER.
Platform Design Info for Affymetrix FelGene-1_0-st.
Platform Design Info for The Manufacturer's Name Cotton.
PAST takes GWAS output and assigns SNPs to genes, uses those genes to find pathways associated with the genes, and plots pathways based on significance. Implements methods for reading GWAS input data, finding genes associated with SNPs, calculating enrichment score and significance of pathways, and plotting pathways.
Platform Design Info for NimbleGen feinberg_mm8_me_hx1.
Platform Design Info for The Manufacturer's Name Citrus.
Platform Design Info for Affymetrix SoyGene-1_0-st.
This package performs tests for paired high-throughput data.
Platform Design Info for The Manufacturer's Name Maize.
The POMA package offers a comprehensive toolkit designed for omics data analysis, streamlining the process from initial visualization to final statistical analysis. Its primary goal is to simplify and unify the various steps involved in omics data processing, making it more accessible and manageable within a single, intuitive R package. Emphasizing on reproducibility and user-friendliness, POMA leverages the standardized SummarizedExperiment class from Bioconductor, ensuring seamless integration and compatibility with a wide array of Bioconductor tools. This approach guarantees maximum flexibility and replicability, making POMA an essential asset for researchers handling omics datasets. See https://github.com/pcastellanoescuder/POMAShiny. Paper: Castellano-Escuder et al. (2021) <doi:10.1371/journal.pcbi.1009148> for more details.
Platform Design Info for Affymetrix OviGene-1_0-st.
Platform Design Info for Affymetrix BovGene-1_0-st.
The package allows for predicting whether a coiled coil sequence (amino acid sequence plus heptad register) is more likely to form a dimer or more likely to form a trimer. Additionally to the prediction itself, a prediction profile is computed which allows for determining the strengths to which the individual residues are indicative for either class. Prediction profiles can also be visualized as curves or heatmaps.
Store phastCons30way.UCSC.hg38 AnnotationHub Resource Metadata.
Combine generalised least squares methodology from the nlme package for dealing with autocorrelation with penalised least squares methods from the glmnet package to deal with high dimensionality. This pengls packages glues them together through an iterative loop. The resulting method is applicable to high dimensional datasets that exhibit autocorrelation, such as spatial or temporal data.
Platform Design Info for Affymetrix HuGene-1_0-st-v1.
Platform Design Info for NimbleGen charm_hg18_example.
Platform Design Info for The Manufacturer's Name Hu6800.
build graphs from pathway databases, render them by Rgraphviz.
Platform Design Info for The Manufacturer's Name miRNA-1_0.
Platform Design Info for The Manufacturer's Name MOE430A.