shinyHTGQC

shinyHTGQC performs quality-control assessment of HTG EdgeSeq gene-expression sequencing runs by evaluating control-gene expression against predefined thresholds to categorize runs and flag low-quality samples.

Key Features:

• Control-gene thresholding: Evaluates control-gene expression levels against predefined thresholds to categorize sequencing runs.
• Flagging system: Flags samples that do not meet statistical quality criteria.
• Data visualization: Generates visualizations to represent QC metrics and flagged samples.
• R package integration: Implements computational steps using the R package HTGQC.

Scientific Applications:

• Sequencing run quality control: Assessment and categorization of HTG EdgeSeq sequencing runs based on control-gene expression.
• Tumor research: Quality assessment of HTG EdgeSeq gene-expression data used in tumor studies.

Methodology:

Processes raw HTG EdgeSeq sequencing data to assess control-gene expressions and applies statistical criteria with predefined thresholds to flag samples; computations are implemented using the R package HTGQC.