Genxflo

Genxflo enables researchers to build Nextflow DSL2 bioinformatics pipelines through a browser-based visual interface without writing code.

Key Features:

• Visual Pipeline Builder: Users drag tools onto a canvas and connect them to design workflows.
• Nextflow DSL2 Export: Generates production-ready, standard Nextflow DSL2 code that is container-ready and not locked to the platform.
• Tool Library for NGS: Covers quality control (FastQC, MultiQC, Fastp, BBDuk), alignment (BWA, Bowtie2, HISAT2, STAR), quantification (Salmon, StringTie, FeatureCounts), variant calling (FreeBayes, GATK), and assembly (SPAdes, Prokka).
• AI-Assisted Validation: Catches wiring mistakes before execution.
• Container and Deployment Support: Supports Docker containerisation with local, HPC, and cloud deployment on AWS, Azure, and Google Cloud.

Scientific Applications:

• NGS Quality Control: Incorporates FastQC, MultiQC, Fastp, and BBDuk for sequencing data quality assessment and trimming.
• Sequence Alignment: Supports BWA, Bowtie2, HISAT2, and STAR for read mapping.
• Transcript Quantification: Uses Salmon, StringTie, and FeatureCounts for gene expression analysis.
• Variant Calling: Implements FreeBayes and GATK for detecting genetic variants.
• Genome Assembly and Annotation: Employs SPAdes and Prokka for assembly and prokaryotic genome annotation.

Methodology:

Users design workflows on a drag-and-drop canvas; an AI-assisted validation layer checks for wiring errors; the system exports clean Nextflow DSL2 code.