This is a reuse of [Microsplit](https://pypi.org/project/microsplit/) structure. Hi-Classifier is a command-line tool designed to identify, classify, and manage paired reads in BAM files derived from Hi‑C experiments. It follows the logic and structure of the [Parasplit](https://pypi.org/project/parasplit/) tool but is tailored for Micro-C data. The tool reads alignment files (SAM, BAM, or CRAM) using `pysam` and identifies events of soft-clipping or hard-clipping.
This is a reuse of [Microsplit](https://pypi.org/project/microsplit/) structure. Hi-Classifier is a command-line tool designed to identify, classify, and manage paired reads in BAM files derived from Hi‑C experiments. It follows the logic and structure of the [Parasplit](https://pypi.org/project/parasplit/) tool. The tool reads alignment files (SAM, BAM, or CRAM) using `pysam`.
