hiReadsProcessor

hiReadsProcessor processes Linear Amplification-Mediated PCR (LM-PCR) sequencing data to demultiplex samples, trim adaptors, identify genomic products, perform quality control, and quantify product abundance for genomics and molecular biology analyses.

Key Features:

• Demultiplexing Automation: Automates demultiplexing using input files such as Excel or text documents containing parameters and sample metadata.
• Adaptor Trimming and Genomic Product Identification: Trims adaptors from reads and identifies genomic LM-PCR products for downstream analysis.
• Quality Control (QC) Processing: Performs quality-control processing of processed genomic products to retain high-fidelity data.
• Abundance Quantification: Quantifies the abundance of identified genomic products from sequencing data.
• Sequencing Platform Compatibility: Integrates with data from various sequencing platforms for LM-PCR workflows.
• Bioconductor Interoperability: Interfaces with Bioconductor (R) for downstream bioinformatic and statistical analysis.

Scientific Applications:

• LM-PCR product processing and characterization: Preparation and characterization of LM-PCR-derived sequences for quantitative and qualitative analyses.
• Gene expression profiling: Quantification of product abundance to support gene expression studies.
• Mutation detection: Processing and QC of LM-PCR sequencing data to support detection of sequence variants.
• High-throughput sequencing preprocessing: Preprocessing LM-PCR sequencing data to generate inputs for downstream genomic analyses and statistical workflows.

Methodology:

Demultiplexing from Excel/text metadata files; adaptor trimming; identification of genomic LM-PCR products; quality-control processing; abundance quantification; interoperability with Bioconductor (R) for downstream analyses.