aerusakovich/nano-circ: v2. Revised benchmark workflow

This release reformatted some analysis steps into a Nextflow pipeline, allowing to generate and process multiple datasets and improving reproducibility and scalability across different computing environments. New: NanoSim simulation, circRNA detection (CIRI-long, IsoCirc, circNICK-lrs), BED12 conversion, and performance evaluation are now handled by a single Nextflow pipeline (manuscript_v2/Scripts/Analysis/main.nf) with modular design Pipeline configuration via params.yaml and nextflow.config for straightforward adaptation to different datasets and compute environments Updated visualisation scripts with a helper script to automatically resolve Nextflow output paths (symlinks_nf.sh) Preserved: All original shell/Python scripts from manuscript v1 remain fully available under manuscript_v1/ Full Changelog: https://github.com/aerusakovich/nano-circ/commits/v2