An open-source application for biological image analysis
Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis
A flexible pipeline for complete analysis of bacterial genomes
The main features of bactopia/bactopia are: Analysis Pipelines.
Open-source alternatives to bactopia/bactopia include: cellprofiler/cellprofiler — An open-source application for biological image analysis. cellprofiler/cellprofiler-analyst. chapmanb/bcbio-nextgen — Validated, scalable, community developed variant calling, RNA-seq and small RNA analysis. danifranco/biapy. fmalmeida/bacannot — Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and… bodenmillergroup/imcworkflow.