Bioconductor Packages

Provide functions to retrieve and report on usage expenses in NHGRI AnVIL (anvilproject.org).

The GCP R Client for the AnVIL

Publish Packages and Other Resources to AnVIL Workspaces

Expose the vrs_anvil_toolkit Python package via R

Run workflows implemented in Terra/AnVIL workspace

A framework for sharing interactive data and plots from R through the web

Statistical analysis of sequins

Analysis of Copy Number Variation in Single-Cell-Sequencing Data

Manipulation of SQLite-based annotations in Bioconductor

Facilities for Filtering Bioconductor Annotation Resources

Tools for building SQLite-based annotation data packages

AnnotationGx: A package for building, updating and querying an annotation database for pharmaco-genomic data

Client to access AnnotationHub resources

Transform public data resources into Bioconductor Data Structures

Access the ArrayExpress Collection at EMBL-EBI Biostudies and build Bioconductor data structures: ExpressionSet, AffyBatch, NChannelSet

ArrayExpress High Throughput Sequencing Processing Pipeline

geneChip Analysis Package

Annotated variants on the chromosome 21, human genome 19, Ashkenazim Trio son sample

Assess Gene Predictions Using Proteomics and Evolutionary Conservation

Gene Expression Atlas query and gene set enrichment package.

Automated parameter selection for untargeted metabolomics data processing

Bayesian Analysis of Chip-chip experiment

Bayesian Analysis of Differential Expression in RNA Sequencing Data

BANDITS: Bayesian ANalysis of DIfferenTial Splicing

Bayesian Analysis of Single-Cell Sequencing data

Stan implementation of BASiCS

BBCAnalyzer: an R/Bioconductor package for visualizing base counts

Barcode Analysis using linear models

Meta-analysis for the metagenomic read counts data from different cohorts

BEARscc (Bayesian ERCC Assesstment of Robustness of Single Cell Clusters)

BEAT - BS-Seq Epimutation Analysis Toolkit

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

Bayesian models for differential gene expression

Bayesian Hierarchical Clustering

BLMA: A package for bi-level meta-analysis

Refitting diploid region profiles using a clustering procedure

Model higher-order methylation profiles

Baffling Recursive Algorithm for Isotope distributioN calculations

Tools for the Efficient Analysis of High-Resolution Genomics Data

Software infrastructure for efficient representation of full genomes and their SNPs

Forge your own BSgenome data package

Computational pipeline for computing probability of modification from structure probing experiment data

Gene network reconstruction

Batch Effects Correction with Unknown Subtypes

kallisto | bustools R utilities

Batch Effect Correction with Unknow Subtypes for scRNA-seq data

BaalChIP: Bayesian analysis of allele-specific transcription factor binding in cancer genomes

BadRegionFinder: an R/Bioconductor package for identifying regions with bad coverage

Bioconductor-Friendly Multithreaded BAM Processing