Bioconductor Packages

LegATo: Longitudinal mEtaGenomic Analysis Toolkit

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

LowMACAAnnotation

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

M3Drop Example Data

Experimental Data Package: MAQCsubset

MIGSA vignette data

Example ChIP-Seq data for the MMDiff package

Data package for Multi-Omics Factor Analysis (MOFA)

A set of annotation maps describing the Mouse Phenotype Ontology

Data sets for the book 'Modern Statistics for Biology'

Transcriptomic Breast Cancer Datasets

Transcriptomic Ovarian Cancer Datasets

Transcriptomic Pancreatic Cancer Datasets

Tools and functions for preprocessing 16S and metagenomic sequencing microbiome data

Datasets for benchmarking in microbiome research

Data for the NCIgraph software package

NestLink an R data package to guide through Engineered Peptide Barcodes for In-Depth Analyzes of Binding Protein Ensembles

Data required for getting the gene set scores with NetActivity package

Supporting data for package OMICsPCA

Ob/ob Mice Data on Normal and High Fat Diet

Orthology mapping package

Probe-level Expression Change Averaging

expression and copy number data on clear cell renal carcinoma samples

Data package with transcript expression obtained with kallisto from pasilla knock-down RNA-Seq data from Brooks et al.

Experimental data for the PathNet package

Data package for phylogenetic profile analysis using PhyloProfile tool

SELDI-TOF data of Breast cancer samples

Programmatic access to ProteinGym datasets in R/Bioconductor

P. tricornutum HPLC-ESI-MS Lipid Data from van Creveld et al. (2015)

test data for RIPSeeker

An ExperimentHub package for accessing processed RLSuite data sets

Aligned reads from RNAseq experiment: Transcription profiling by high throughput sequencing of HNRNPC knockdown and control HeLa cells

Companion package to the 'Using R and Bioconductor for proteomics data analysis' publication

Supporting datasets for SBGNview package

Collection of spatial transcriptomics datasets in SpatialExperiment Bioconductor format

A bioconductor package for sample quality check with next generation sequencing data

Integrating Multi-modal Single Cell Experiment datasets

Somatic Cancer Alterations

Collection of spatial omics datasets

Visium spatial gene expression data by 10X Genomics

Transcriptome instability analysis

A Collection of Tumour Microenvironment Single-cell RNA Sequencing Datasets and Corresponding Metadata

Data for the VariantTools tutorial

Vectra Polaris and Vectra 3 multiplex single-cell imaging data

Whole Exome Sequencing (WES) of chromosome 22 401st to 500th exon from the 1000 Genomes (1KG) Project by the Washington University Genome Sequencing Center (WUGSC).

Mappability tracks of Whole-genome Sequencing from the ENCODE Project

Spatially-resolved transcriptomics and single-nucleus RNA-sequencing data from the locus coeruleus (LC) in postmortem human brain samples

RangedSummarizedExperiment for RNA-Seq in airway smooth muscle cells, by Himes et al PLoS One 2014

Analysis of SUrvival and RIsk prediction in patients based on gene signatures