Dear all,
I just created a NextFlow pipeline called nf-m6anet, which performs alignment of sequencing reads in fastq format to the transcriptome with minimap2, resquiggling of raw fast5 files with f5c re-implementation of Nanopolish and m6A detection with m6anet. Compared to nanoseq, it also filters high-quality m6A+ sites based on modification probability and performs lift-over of transcriptome-based to genome-based coordinates. Feel free to use it and provide me with any feedbacks or suggestions you may have!
Best
Dear all, I just created a NextFlow pipeline called nf-m6anet, which performs alignment of sequencing reads in fastq format to the transcriptome with minimap2, resquiggling of raw fast5 files with f5c re-implementation of Nanopolish and m6A detection with m6anet. Compared to nanoseq, it also filters high-quality m6A+ sites based on modification probability and performs lift-over of transcriptome-based to genome-based coordinates. Feel free to use it and provide me with any feedbacks or suggestions you may have! Best