TraceQC

TraceQC performs quality control on sequence data generated by CRISPR-based lineage tracing systems to support accurate lineage reconstruction.

Key Features:

• Implementation: Implemented as an R package for quality control of CRISPR-based lineage tracing sequence data.
• CRISPR Lineage Tracing Specificity: Focuses on features unique to CRISPR-based lineage tracing data rather than traditional RNA-seq or DNA-seq QC.
• Noise Sensitivity Mitigation: Identifies and filters out low-quality data points to reduce noise and improve the fidelity of lineage reconstruction.

Scientific Applications:

• Lineage tree reconstruction: Supports accurate reconstruction of cell lineage trees from CRISPR-induced mutation data by improving input data quality.
• Developmental biology, cancer progression, and regenerative medicine: Enables studies of cell lineage dynamics in these fields by providing filtered, high-quality CRISPR lineage tracing datasets.

Methodology:

Performs quality control by focusing on CRISPR-specific sequence features and identifying and filtering out low-quality data points.