DNABarcodeCompatibility

"DNABarcodeCompatibility" is an R-package to assist in designing single or dual-barcoding multiplex experiments for next-generation sequencing. Allowing users to set specific constraints on the barcodes, including sequencer chemistry requirements, minimal distance between barcode pairs, and nucleotide content, ensures the selection of DNA barcodes that can unambiguously identify each DNA library within a multiplexed set. Moreover, optimizing barcode frequency usage facilitates the demultiplexing process and helps conserve resources by sparing expensive library preparation kits.

Key Features and Functionalities:

- Optimized Barcode Selection: It optimizes the selection process of DNA barcodes by enforcing user-defined constraints, ensuring the generation of highly compatible and efficient barcoding strategies for multiplex sequencing.

- Facilitates Demultiplexing: By optimizing barcode frequency usage and ensuring adequate constraints are met, DNABarcodeCompatibility simplifies the demultiplexing step, making the process more accurate and efficient.

- Saves Resources: The intelligent selection and usage of barcodes can help users spare costly library-preparation kits, making the sequencing process more economical without compromising quality.

- User-Friendly Interface: Accompanied by a user-friendly interface and a web app developed in Java and Shiny, it bridges the gap between the technical complexity of sequencing and the experimental needs of researchers, particularly those with less experience in sequencing technologies.

- Extensibility: DNABarcodeCompatibility can be easily extended and customized to meet specific project needs, providing flexibility to researchers and core facilities.