Dataset Information

NGauge: Integrated and Extensible Neuron Morphology Analysis in Python.

ABSTRACT: The study of neuron morphology requires robust and comprehensive methods to quantify the differences between neurons of different subtypes and animal species. Several software packages have been developed for the analysis of neuron tracing results stored in the standard SWC format. The packages, however, provide relatively simple quantifications and their non-extendable architecture prohibit their use for advanced data analysis and visualization. We developed nGauge, a Python toolkit to support the parsing and analysis of neuron morphology data. As an application programming interface (API), nGauge can be referenced by other popular open-source software to create custom informatics analysis pipelines and advanced visualizations. nGauge defines an extendable data structure that handles volumetric constructions (e.g. soma), in addition to the SWC linear reconstructions, while remaining lightweight. This greatly extends nGauge's data compatibility.

SUBMITTER: Walker LA

PROVIDER: S-EPMC9720862 | biostudies-literature | 2022 Jul

REPOSITORIES: biostudies-literature

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Publications

nGauge: Integrated and Extensible Neuron Morphology Analysis in Python.

Walker Logan A LA Williams Jennifer S JS Li Ye Y Roossien Douglas H DH Lee Wei Jie WJ Michki Sylvia N SN Cai Dawen D

Neuroinformatics 20220305 3

The study of neuron morphology requires robust and comprehensive methods to quantify the differences between neurons of different subtypes and animal species. Several software packages have been developed for the analysis of neuron tracing results stored in the standard SWC format. The packages, however, provide relatively simple quantifications and their non-extendable architecture prohibit their use for advanced data analysis and visualization. We developed nGauge, a Python toolkit to support ...[more]

PMID: 35247136

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Dataset Information

NGauge: Integrated and Extensible Neuron Morphology Analysis in Python.

Publications

nGauge: Integrated and Extensible Neuron Morphology Analysis in Python.

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