Installation¶

Prerequisites¶

• Python 3.10 or later
• A C compiler (required by pysam and bx-python)

Install from PyPI¶

pip install rseqc-redux

Or with uv:

uv pip install rseqc-redux

Install from source¶

git clone https://github.com/semenko/rseqc-redux.git
cd rseqc-redux
pip install .

Verify installation¶

bam_stat.py --version

System dependencies¶

Some dependencies require system libraries:

• pysam requires htslib headers. On most systems, pip will build from source automatically. If you encounter build errors, install htslib via your package manager:
  • macOS: brew install htslib
  • Ubuntu/Debian: apt install libhts-dev
• pyBigWig requires libcurl and zlib headers.

Optional: gene model files¶

Many tools require a reference gene model in BED12 format. See Input Formats for details on obtaining these files.