Göke Lab ORG

A curated list of awesome nanopore analysis tools.

minimal example implementations for bioinformatics workflow managers

Reference-guided transcript discovery and quantification for long read RNA-Seq data

Identification of differential RNA modifications from nanopore direct RNA sequencing

Nanopore RNA-Seq data from the Singapore Nanopore-Expression Project

Detection of m6A from direct RNA-Seq data

Estimation of Promoter Activity from RNA-Seq data

A curated list of awesome genomics and bioinformatics agentic skills, MCPs and benchmarks for Claude Code, Copilot, Codex, Cursor, Gemini CLI, etc

A curated directory of ready-made AI agent skills and live database connections for genomics and bioinformatics work, covering variant calling, RNA-seq, single-cell analysis, protein structure, and drug discovery pipelines.

Transcript discovery and quantification for long read single cell and spatial transcriptomics data using Bambu

Nanopore RNASeq data

Nanopore demultiplexing, QC and alignment pipeline

Bioinformatics containers

A pipeline for alternative promoter analysis.

A minimal nextflow pipeline to align (fastq) reads using minimap2, align raw nanopore signal (pod5) using f5c, and perform differential modification analysis using Xpore.

Nextflow pipeline used for aligning nanopore modBAM files using minimap2 (preserving modification tags) and summarising modifications using modkit. Used to process RNome data

No description.

Repository to host tool-specific module files for the Nextflow DSL2 community!

proActiv workflow: Identifying active and alternative promoters from RNA-Seq data

Downstream analysis of Nanopore RNA data - transcriptome reconstruction and feature counts (under development)