 Open-source software does not imply a lack of professional quality: Many open-source projects are maintained by dedicated teams with robust testing and good programming practices. In genomics, projects like samtools () , an MIT-licensed () project with over 80 contributors and 50,000+ citations, and the Genome Analysis Toolkit (GATK, ) , now open-source with over 100 maintainers and 26,000+ citations, exemplify this standard. In proteomics, Percolator ( ) (6) has over 2000 citations and 20 contributors, serving as a core tool for projects like MS2Rescore , OpenMS , MSBooster , DeepRescore , Crux , and even commercial tools like Mascot and Proteome Discoverer, and many others . Other successful open-source projects in proteomics, such as OpenMS , Skyline , Comet , PeptideShaker , ThermoRawFileParser , and ProteoWizard , demonstrate the benefits of transparency and collaboration. Despite these successes, academic open-source proteomics software is still perceived as lower quality. In 2018, Rob Smith highlighted the community's concerns about academic proteomics and metabolomics software, including poor documentation, lack of transparency, and limited support . However, it should be noted that much of this feedback was directed at academic and free-for-academic-use software rather than exclusively open-source software.