HTSQualC

HTSQualC performs automated quality control and preprocessing of high-throughput sequencing (HTS) data to remove sequencing artifacts and prepare raw datasets for downstream analyses.

Key Features:

• Quality assessment: Evaluates data quality of raw HTS datasets.
• Artifact removal: Removes sequencing artifacts present in raw HTS datasets.
• Filtering and trimming: Executes filtering and trimming analyses concurrently.
• Integrated single-step QC: Performs multiple QC tasks in a single execution.
• Batch and parallel processing: Supports parallel processing and batch handling of large sample sets.
• Scalability: Demonstrated processing of up to 322 samples with approximately one million paired-end sequence reads per sample.
• Performance modes: Shows measured runtimes of ~3 hours in distributed mode and ~31 hours in shared mode for benchmarked datasets.

Scientific Applications:

• Preprocessing for downstream analyses: Prepares raw HTS datasets by evaluating quality and removing artifacts prior to downstream analyses.
• High-throughput sequencing projects: Enables QC of large-scale projects containing paired-end sequence reads.
• Batch processing of sample cohorts: Supports large-cohort QC workflows through parallel and batch processing.

Methodology:

Performs single-step QC by evaluating data quality, removing sequencing artifacts, and concurrently executing filtering and trimming with support for batch and parallel processing in distributed or shared modes.