1. nf-core/isoseq: simple gene and isoform annotation with PacBio Iso-Seq long-read sequencing.
- Author
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Guizard, Sébastien, Miedzinska, Katarzyna, Smith, Jacqueline, Smith, Jonathan, Kuo, Richard I, Davey, Megan, Archibald, Alan, and Watson, Mick
- Subjects
ANNOTATIONS ,NUCLEOTIDE sequencing ,GENES ,GENOMES ,TRANSCRIPTOMES - Abstract
Motivation 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. Availability and implementation The pipeline is freely available online on the nf-core website (https://nf-co.re/isoseq) and on GitHub (https://github.com/nf-core/isoseq) under MIT License (DOI: 10.5281/zenodo.7116979). [ABSTRACT FROM AUTHOR]
- Published
- 2023
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