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Purifibre cleanup

Streamlines loaded from a source are cleaned with Purifibre (trim + spherical smoothing) and then saved. The Purifibre op has two outputs — the cleaned streamlines and the rejected ones — so the diagram shows how multi-output nodes lay out.

Purifibre cleanup diagram

Methods boilerplate

Rendered from the runtime methods-report generator for this workflow. Citation keys resolve to footnotes via mkdocs-bibtex; running the raw markdown through Pandoc + the project's citations.bib gives the same result for an exported paper.

Not the authoritative implementation. TRXViz provides re-implementations or ports of the methods referenced below. These implementations are NOT the authoritative versions — for the canonical implementations, please use the original software packages. Any differences in behavior or bugs are the responsibility of TRXViz, not the original authors. The presence of a citation here indicates only that TRXViz uses a method derived from that work and that users should credit the original authors; it does not imply that the original authors have reviewed, contributed to, or endorsed TRXViz.

Methods

The following analysis was performed using TRXViz 1. Streamlines were cleaned with Purifibre 23 (FOD-coherence-based filtering) using a 10% trim fraction, a 10% discard fraction, and a 15.0° spherical Gaussian smoother.

  1. Matthew Cieslak. Trxviz: interactive visualization and analysis for streamline and odf data in the trx/odx formats. TODO: finalize author list, Zenodo DOI, and version-specific citation. URL: https://github.com/PennLINC/TRXViz. ↩

  2. Dogu Baran Aydogan and Yonggang Shi. Purifibre: fod-coherence based streamline filtering. TODO, TODO. TODO: confirm canonical Purifibre citation (method paper). ↩

  3. Dogu Baran Aydogan and others. Nibrary: neuroimaging library for tractography and related methods. TODO: fill in canonical citation (Aydogan group, nibrary). ↩