Bioconductor Packages

Bioconductor facilities for parallel evaluation

An interactive Shiny dashboard for Bioconductor package maintainers

Collection of simple tools for learning about Bioconductor Packages

Representing Different Biological Sets

Singular Value Decomposition for Bioconductor Packages

interface to python sklearn via Rstudio reticulate

Set the appropriate version of Bioconductor packages

Tools to aid the development of Bioconductor Workflow packages

Efficient manipulation of biological strings

This R package for performing module repertoire analyses and generating fingerprint representations

Cohort-aware methods for intrinsic molecular subtyping of breast cancer

Code for using BridgeDb identifier mapping framework from within R

BrowserViz: interactive R/browser graphics using websockets and JSON

A matrix data storage object held in temporary files

Microarray Data related methods that utlize BufferedMatrix objects

Infer Ligand-Receptor Interactions from bulk expression (transcriptomics/proteomics) data, or spatial transcriptomics

Bumpy Matrix of Non-Scalar Objects

Category encoding method for selecting feature genes for the classification of single-cell RNA-seq

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

Spatially Informed Cell Type Deconvolution for Spatial Transcriptomics

A CAusal Reasoning tool for Network Identification (from gene expression data) using Integer VALue programming

Cytometry dATa anALYSis Tools

CBN2Path: an R/Bioconductor package for the analysis of cancer progression pathways using Conjunctive Bayesian Networks

plot bayesian network inferred from gene expression data based on enrichment analysis results

Case Control Allele Frequency Estimation

Plots For Visualising Cell-Cell Interactions

Clustering Deviation Index (CDI)

Co-expression Modules identification Tool

Statistical analysis for the Colony Formation Assay

An R package for analysis of case-control studies in genetic epidemiology

CGHbase: Base functions and classes for arrayCGH data analysis.

Normalization of array CGH data with imbalanced aberrations.

Dimension Reduction for Array CGH Data with Minimal Information Loss.

Fast and accurate scRNA-seq cell type identification

CHRONOS: A time-varying method for microRNA-mediated sub-pathway enrichment analysis

CIMICE-R: (Markov) Chain Method to Inferr Cancer Evolution

Synthesis of microarray-based classification

A normalization method for Copy Number Aberration in cancer samples

CNE Detection and Visualization

Add-on to CellNOptR: Discretized time treatments

Addon to CellNOptR: Fuzzy Logic

ODE add-on to CellNOptR

Reliable CNV detection in targeted sequencing applications

Identifies false positives of CNV calling tools by using SNV calls

Copy Number Visualization

Coordinate Covariation Analysis

A Normalization and Copy Number Variation Detection Method for Whole Exome Sequencing

Data normalization by matrix raking

Cost Sensitive Network for node label prediction on graphs with highly unbalanced labelings