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systemsomicslab

ms-data-parser

by systemsomicslab
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    TDQS

    B3.3/5.0

    Scored across 77 tools

    Disambiguation2/5

    The tool set has several dangerously similar entry points and overlapping workflows: load_dataset vs dataset_load, arf_parser vs arf2_parser vs load_dataset, and the parallel console_* and pipeline_* lifecycle tools. Descriptions often explain the differences, but with 77 tools the boundaries remain easy to misselect.

    Naming Consistency3/5

    Almost all names are snake_case and many use domain prefixes, but verb placement is inconsistent: load_dataset/list_reports/list_data_files are verb_noun, while dataset_load/library_load/job_list are noun_verb or noun-first. Synonyms such as parser, load, ingest, and plan are also used across related concepts.

    Tool Count1/5

    Seventy-seven tools is far beyond a reasonable MCP surface and mixes data parsing, analysis, plotting, curation, knowledge management, pipeline lifecycle, and server maintenance in one server. Even for a broad lipidomics platform, this is an extreme mismatch in scope.

    Completeness4/5

    Coverage is very broad: ARF/ARF2/PAI2/DCL/EIC/mzTab-M loading, preprocessing, PCA, differential analysis, plotting, export, library matching, curation, reports, knowledge ingestion, and pipeline control. Minor gaps may exist around knowledge retrieval or cleanup ergonomics, but core workflows appear well covered.

    Maintenance

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    ResponsivenessResponsive

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