rnaseqGeneMichael LoveRNA-seq workflow: gene-level exploratory analysis and differential expression
liftOverBioconductor Package MaintainerChanging genomic coordinate systems with rtracklayer::liftOver
RNAseq123Matthew RitchieRNA-seq analysis is easy as 1-2-3 with limma, Glimma and edgeR
proteomicsLaurent GattoMass spectrometry and proteomics data analysis
maEndToEndStefanie ReisenauerAn end to end workflow for differential gene expression using Affymetrix microarrays
simpleSingleCellAaron LunA step-by-step workflow for low-level analysis of single-cell RNA-seq data with Bioconductor
TCGAWorkflowTiago Chedraoui SilvaTCGA Workflow Analyze cancer genomics and epigenomics data using Bioconductor packages
methylationArrayAnalysisJovana MaksimovicA cross-package Bioconductor workflow for analysing methylation array data.
RnaSeqGeneEdgeRQLYunshun ChenGene-level RNA-seq differential expression and pathway analysis using Rsubread and the edgeR quasi-likelihood pipeline
annotationBioconductor Package MaintainerGenomic Annotation Resources
cytofWorkflowMark D. RobinsonCyTOF workflow: differential discovery in high-throughput high-dimensional cytometry datasets
arraysBioconductor Package MaintainerUsing Bioconductor for Microarray Analysis
rnaseqDTUMichael LoveRNA-seq workflow for differential transcript usage following Salmon quantification
ExpressionNormalizationWorkflowKarthikeyan MurugesanGene Expression Normalization Workflow
sequencingBioconductor Package MaintainerIntroduction to Bioconductor for Sequence Data
variantsBioconductor Package MaintainerAnnotating Genomic Variants
chipseqDBAaron LunA Bioconductor Workflow to Detect Differential Binding in ChIP-seq Data
eQTLVincent CareyCloud-enabled cis-eQTL searches with Bioconductor GGtools 5.x
generegulationBioconductor Package MaintainerFinding Candidate Binding Sites for Known Transcription Factors via Sequence Matching
EGSEA123Matthew RitchieEasy and efficient ensemble gene set testing with EGSEA
highthroughputassaysBioconductor Package MaintainerUsing Bioconductor with High Throughput Assays
recountWorkflowLeonardo Collado-Torresrecount workflow: accessing over 70,000 human RNA-seq samples with Bioconductor
csawUsersGuideAaron Luncsaw User’s Guide
SingscoreAMLMutationsDharmesh D. BhuvaUsing singscore to predict mutations in AML from transcriptomic signatures
BiocMetaWorkflowMike SmithBioC Workflow about publishing a Bioc Workflow
CAGEWorkflowMalte ThodbergA step-by-step guide to analyzing CAGE data using R/Bioconductor