BasicSTARRseq

BasicSTARRseq performs peak calling on STARR-seq data to identify active regulatory elements and regions of transcriptional activity in genomes.

Key Features:

• Peak calling: Identifies genomic peaks from STARR-seq high-throughput sequencing data to localize active regulatory regions.
• Bioconductor integration: Implements analysis within the Bioconductor framework and is compatible with R-based workflows.
• Interoperability: Supports data exchange and analysis alongside other Bioconductor packages and ecosystem components.
• High-throughput sequencing support: Operates on sequencing outputs produced by STARR-seq experiments.
• Quality assurance: Is subject to formal initial review and continuous automated testing to ensure reproducibility of peak-calling results.

Scientific Applications:

• Identification of active regulatory regions: Detects enhancers and other regulatory elements that drive transcriptional activity in STARR-seq experiments.
• Gene regulation studies: Supports investigation of transcriptional regulatory mechanisms by mapping active regulatory landscapes genome-wide.

Methodology:

Performs computational analysis of high-throughput STARR-seq sequencing data with a focus on peak calling, implemented within the Bioconductor/R environment.