https://github.com/goekelab/bioinformatics-workflows

minimal example implementations for bioinformatics workflow managers

bioinformatics bioinformatics-workflows pipeline rna-seq workflow workflow-management

Last synced: 07 Apr 2025

https://github.com/GoekeLab/bambu

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

bambu bioconductor long-reads nanopore nanopore-sequencing r rna-seq rna-seq-analysis transcript-quantification transcript-reconstruction transcriptomics

Last synced: 06 May 2025

https://github.com/goekelab/bambu

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

bambu bioconductor long-reads nanopore nanopore-sequencing r rna-seq rna-seq-analysis transcript-quantification transcript-reconstruction transcriptomics

Last synced: 15 May 2025

https://github.com/goekelab/xpore

Identification of differential RNA modifications from nanopore direct RNA sequencing

genomics machine-learning modification nanopore nanopore-sequencing python rna rna-modifications rna-seq transcriptomics

Last synced: 16 May 2025

https://github.com/GoekeLab/xpore

Identification of differential RNA modifications from nanopore direct RNA sequencing

genomics machine-learning modification nanopore nanopore-sequencing python rna rna-modifications rna-seq transcriptomics

Last synced: 06 May 2025

https://github.com/goekelab/m6anet

Detection of m6A from direct RNA-Seq data

Last synced: 12 Apr 2025

https://github.com/goekelab/sg-nex-data

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

direct-rna-sequencing long-reads nanopore rna-seq transcriptomics

Last synced: 05 Apr 2025

https://github.com/GoekeLab/m6anet

Detection of m6A from direct RNA-Seq data

Last synced: 06 May 2025

https://github.com/goekelab/proactiv

Estimation of Promoter Activity from RNA-Seq data

alternative-promoters genomics promoter-activity promoter-annotation r rna-seq-data

Last synced: 15 Apr 2025

https://github.com/goekelab/bambu-singlecell-spatial

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

Last synced: 26 Feb 2026

https://github.com/goekelab/nanoporernaseq

Nanopore RNASeq data

bioconductor long-reads nanopore r rna-seq sg-nex

Last synced: 15 Jul 2025

https://github.com/goekelab/icgc_alternative_promoters

A pipeline for alternative promoter analysis.

Last synced: 04 Feb 2026

https://github.com/goekelab/proactivworkflow

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

Last synced: 27 Feb 2026

https://github.com/goekelab/ncnat_promoter_switch_code

Last synced: 23 Jun 2025