Bioconductor Workflow Packages
Bioconductor version: Release (3.20)
| Package | Maintainer | Title |
|---|---|---|
| annotation | Bioconductor Package Maintainer | Genomic Annotation Resources |
| arrays | Bioconductor Package Maintainer | Using Bioconductor for Microarray Analysis |
| BiocMetaWorkflow | Mike Smith | BioC Workflow about publishing a Bioc Workflow |
| BP4RNAseq | Shanwen Sun | A babysitter's package for reproducible RNA-seq analysis |
| CAGEWorkflow | Malte Thodberg | A step-by-step guide to analyzing CAGE data using R/Bioconductor |
| chipseqDB | Aaron Lun | A Bioconductor Workflow to Detect Differential Binding in ChIP-seq Data |
| csawUsersGuide | Aaron Lun | csaw User's Guide |
| cytofWorkflow | Mark D. Robinson | CyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets |
| EGSEA123 | Matthew Ritchie | Easy and efficient ensemble gene set testing with EGSEA |
| ExpHunterSuite | James Perkins | Package For The Comprehensive Analysis Of Transcriptomic Data |
| ExpressionNormalizationWorkflow | Karthikeyan Murugesan | Gene Expression Normalization Workflow |
| fluentGenomics | Stuart Lee | A plyranges and tximeta workflow |
| generegulation | Bioconductor Package Maintainer | Finding Candidate Binding Sites for Known Transcription Factors via Sequence Matching |
| GeoMxWorkflows | Maddy Griswold | GeoMx Digital Spatial Profiler (DSP) data analysis workflows |
| highthroughputassays | Bioconductor Package Maintainer | Using Bioconductor with High Throughput Assays |
| liftOver | Bioconductor Package Maintainer | Changing genomic coordinate systems with rtracklayer::liftOver |
| maEndToEnd | Stefanie Reisenauer | An end to end workflow for differential gene expression using Affymetrix microarrays |
| methylationArrayAnalysis | Jovana Maksimovic | A cross-package Bioconductor workflow for analysing methylation array data. |
| recountWorkflow | Leonardo Collado-Torres | recount workflow: accessing over 70,000 human RNA-seq samples with Bioconductor |
| RNAseq123 | Matthew Ritchie | RNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR |
| rnaseqDTU | Michael Love | RNA-seq workflow for differential transcript usage following Salmon quantification |
| rnaseqGene | Michael Love | RNA-seq workflow: gene-level exploratory analysis and differential expression |
| RnaSeqGeneEdgeRQL | Yunshun Chen | Gene-level RNA-seq differential expression and pathway analysis using Rsubread and the edgeR quasi-likelihood pipeline |
| seqpac | Daniel Natt | Seqpac: A Framework for smallRNA analysis in R using Sequence-Based Counts |
| sequencing | Bioconductor Package Maintainer | Introduction to Bioconductor for Sequence Data |
| simpleSingleCell | Aaron Lun | A step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor |
| SingscoreAMLMutations | Dharmesh D. Bhuva | Using singscore to predict mutations in AML from transcriptomic signatures |
| spicyWorkflow | SOMS Maintainer | Performing a Spatial Analysis of Multiplexed Tissue Imaging Data |
| TCGAWorkflow | Tiago Chedraoui Silva | TCGA Workflow Analyze cancer genomics and epigenomics data using Bioconductor packages |
| variants | Bioconductor Package Maintainer | Annotating Genomic Variants |