SVScope improves somatic structural variations detection via graph-genome optimization (Source Code)

This dataset provides a persistent archive of the SVScope pipeline, including its source code, demonstration materials, and the specific analysis scripts used to generate the results presented in our Genome Biology manuscript: "SVScope improves somatic structural variations detection via graph-genome optimization". SVScope is a comprehensive tool designed for the precise detection and visualization of somatic structural variations (SVs) from long-read sequencing data. File Descriptions: Demo_reference_SourceCode.tar.gz: SVScope Source Code: The core implementation of the SVScope algorithm. Demo Data: Sample BAM files (from PacBio and ONT platforms) and test datasets to allow for immediate validation of the pipeline's functionality. Reference Genome: The specific reference genome sequences (e.g., hg38/GRCh38) and index files used for the local graph-genome optimization process described in the paper. CodeForThisPaper.tar.gz: A collection of custom scripts used for benchmarking, data processing, and performance evaluation. Update log: v4.0 (2026-03-27): Add --verbose parameter to suppresses running log, and fix pandas warnings in SVScope Source Code. v3.0 (2026-03-07): Fix inconsistant CPU number bug in source code. v2.0 (2026-03-07): Fix biopython application error in SVScope source code. v1.0 (2026-01-15): Initial release.