Bioconductor Topics

Microarray QA and statistical data analysis for Applied Biosystems Genome Survey Microrarray (AB1700) gene expression data.

Adaptive Dropout Imputer (ADImpute)

Adaptive Robust Regression normalization for Illumina methylation data

Attribute-Weighted Aggregation

Analyze and correct probe positional bias in microarray data due to RNA degradation

Processing and Differential Expression Analysis of Agilent microRNA chips

Automated spectraL Processing System for NMR

Statistical analysis of sequins

High Performance Data Integration for Large-Scale Analyses of Incomplete Omic Profiles Using Batch-Effect Reduction Trees (BERT)

Correction of batch effects in DNA methylation data

Gene network reconstruction

Batch Effects Quality Control Software

Biological Network Reconstruction Omnibus

Cohort-aware methods for intrinsic molecular subtyping of breast cancer

Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor

Analysis of CAGE (Cap Analysis of Gene Expression) sequencing data for precise mapping of transcription start sites and promoterome mining

Cytometry dATa anALYSis Tools

Case Control Allele Frequency Estimation

Normalization of array CGH data with imbalanced aberrations.

Data normalization by matrix raking

Cellular DNA Barcode Analysis toolkit

Analysis of single-cell epigenomics datasets with a Shiny App

Clustering of MS2 Spectra for Metabolite Identification

Automated detection tool for spillover errors

Automation and visualization of flow cytometry data analysis pipelines

GUI's for visualization of flow cytometry data analysis pipelines

Tools for the Differential Analysis of Proteins Abundance with R

Identify Differentially Expressed Genes from RNA-seq data

a tool to perform statistical analysis of differential protein expression for quantitative proteomics data.

DEsingle for detecting three types of differential expression in single-cell RNA-seq data

Methylation array and sequencing spatial analysis methods

A Tool for Optimizing Combinations of DNA Barcodes Used in Multiplexed Experiments on Next Generation Sequencing Platforms

A tool for creating and analysing DNA barcodes used in Next Generation Sequencing multiplexing experiments

DenoIST: Denoising Image-based Spatial Transcriptomics data

A DownStream Chemo-Proteomics Analysis Pipeline

Estimating Absolute Abundance from Microbial Spike-in Controls

Exploratory Data Analysis and Normalization for RNA-Seq

Quality control and analysis tools for Illumina DNA methylation BeadChip

EpiMix: an integrative tool for the population-level analysis of DNA methylation

R functions for the normalization of Exiqon miRNA array data

FFPE Artificial Chimeric Read Filter for NGS data

graph-GPA: A graphical model for prioritizing GWAS results and investigating pleiotropic architecture

Binomial test for Hi-C data analysis

GPA (Genetic analysis incorporating Pleiotropy and Annotation)

R Package for Processing High Content Screening data

Grey Lists -- Mask Artefact Regions Based on ChIP Inputs

Tools for HELP data analysis

Copy number prediction with correction for GC and mappability bias for HTS data

Filter replicated high-throughput transcriptome sequencing data

Automated analysis of high-throughput qPCR data