Bioconductor Packages

Guitar

HDF5 datasets as array-like objects in R

Tools for HELP data analysis

Automated analysis of high-throughput qPCR data

Introduce *Ranges to bedtools users

The Herper package is a simple toolset to install and manage conda packages and environments from R

Framework for Storing and Accessing Hi-C Data Through HDF Files

Human IMR90 Fibroblast HiC data from Dixon et al. 2012

Bioconductor class for interacting with Hi-C files in R

Parser for HiC data in R

HiCPotts: Hierarchical Modeling to Identify and Correct Genomic Biases in Hi-C

HiCaptuRe: Manipulating and integrating Capture Hi-C data

HiCool

Set of 3D genomic interaction analysis tools

R interface to EBI HoloFood resource

Interface to 'HuBMAP'

Utilities to create and use Bioconductor Hubs

GEO accession GSE64985 and ArrayExpress accession E-MTAB-62 as ExpressionSet objects

ILoReg: a tool for high-resolution cell population identification from scRNA-Seq data

Quality Assessment Tools for Oxford Nanopore MinION data

Foundation of integer range manipulation in Bioconductor

Analyze gene therapy vector insertion sites data identified from genomics next generation sequencing reads for clonal tracking studies

ITALICSData

Interval-Wise Testing for Omics Data

NPMLE for Censored and Truncated Data

Base Classes for Storing Genomic Interaction Data

Graphical User Interface for IsoCorrectoR

Identify, Annotate and Visualize Isoform Switches with Functional Consequences from both short- and long-read RNA-seq data

Disease Datasets from GEO

KEGG Disease Datasets from GEO

Visualize all edges within a KEGG pathway and overlay LINCS data

KnowSeq R/Bioc package: The Smart Transcriptomic Pipeline

Lipid and Oxylipin Biomarker Screening through Adduct Hierarchy Sequences

DBI to construct LRBase-related package

Selected data from the HiC paper of E. Lieberman-Aiden et al. in Science (2009)

LoomExperiment container

A lung cancer dataset that can be used with maPredictDSC package for developing outcome prediction models from Affymetrix CEL files.

M3Drop Example Data

Fast treatment of MACSQuantify FACS data

MAGAR: R-package to compute methylation Quantitative Trait Loci (methQTL) from DNA methylation and genotyping data

CGH Micro-Array NORmalization

Experimental Data Package: MAQCsubset

Detection of de novo deletion in targeted sequencing trios

R interface to EBI MGnify metagenomics resource

Example ChIP-Seq data for the MMDiff package

Base Functions and Classes for Mass Spectrometry and Proteomics

Import Data from Various Mass Spectrometry Signal Processing Tools to MSstats Format

A graphical user interface for MSstatsQC package

MSstats GUI for Statistical Anaylsis of Proteomics Experiments

Model-View-Controller (MVC) Classes