nf-core/isoseq: Simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing

doi: 10.1093/bioinformatics/btad150.

Online ahead of print.


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Sébastien Guizard et al.





Iso-Seq RNA long read sequencing enables the identification of full-length transcripts and isoforms, removing the need for complex analysis such as transcriptome assembly. However, the raw sequencing data need to be processed in a series of steps before annotation is complete. Here, we present nf-core/isoseq, a pipeline for automatic read processing and genome annotation. Following nf-core guidelines, the pipeline has few dependencies and can be run on any of platforms.


The pipeline is freely available online on the nf-core website ( and on github ( under MIT License (DOI: 10.5281/zenodo.7116979).

Supplementary information:

Supplementary data are available at Bioinformatics online.

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