ReorientExpress: reference-free orientation of nanopore cDNA reads with deep learning

Abstract We describe ReorientExpress, a method to perform reference-free orientation of transcriptomic long sequencing reads. ReorientExpress uses deep learning to correctly predict the orientation of the majority of reads, and in particular when trained on a closely related species or in combination with read clustering. ReorientExpress enables long-read transcriptomics in non-model organisms and samples without a genome reference without using additional technologies and is available at https://github.com/comprna/reorientexpress.

Abstract licence: CC BY-NC-ND

• Corrected

  Error correction enables use of Oxford Nanopore technology for reference-free transcriptome analysis · 2021

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