HTGQC

HTGQC performs quality control of HTG EdgeSeq raw sequencing data by evaluating positive and negative control gene expression to identify technical sample failures and alerts for gene expression profiling in tumor and tumor microenvironment studies.

Key Features:

• Quality control framework: Assesses HTG EdgeSeq gene expression data and implements comprehensive QC checks directly on raw sequencing outputs.
• Control-gene benchmarking: Uses positive and negative control gene expression levels as benchmarks for sample performance assessment.
• Automated sample flagging: Automatically flags samples as "FAIL" or "ALERT" based on predefined criteria related to control gene expression levels.

Scientific Applications:

• Oncology research: Enables quality-controlled HTG EdgeSeq gene expression profiling of tumors and their microenvironments.
• Support for diagnostic and therapeutic studies: Helps ensure reliable gene expression data that can inform diagnostic and therapeutic investigations.

Methodology:

Analyzes raw sequencing data, compares positive and negative control gene expression to predefined criteria, and assigns sample-level flags (FAIL or ALERT) based on those criteria.