TrajectoryGenerator/CITATION at master · OmegaProject/TrajectoryGenerator · GitHub

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cff-version: 1.0.3
message: If you use the OMEGA ArtificialTrajectory, please cite both the software and the papers as indicated in the scope of each reference.
authors:
  - family-names: Rigano
    given-names: Alessandro
    affiliation: University of Massachusetts Medical School
    email: alessandro.rigano@umassmed.edu
  - family-names: Strambio-De-Castillia
    given-names: Caterina
    affiliation: University of Massachusetts Medical School
    email: caterina.strambio@umassmed.edu
    orcid: https://orcid.org/0000-0002-1069-1816
title: TrajectoryGenerator
version: v0.01.0-beta
doi: https://doi.org/10.5281/zenodo.2555514
date-released: 2019-02-01
repository: https://github.com/OmegaProject/TrajectoryGenerator
description: This repository contains the source code for several Matlab programs that can be used to generate artificial trajectories:
1) ArtificialTrajectories2: this routine was developed to produce artificial trajectories by Sbalzarini and co-workers (Helmuth et al., 2007).
2) NoisyTrajectoryGeneration: this routine was developed by the OMEGA team to produce "noisy" artificial trajectories as described (Rigano et al., 2018a and 2018b).
3) Brownian1: this routine was developed to produce Brownian trajectories by the OMEGA team as described (Rigano et al., 2018a and 2018b).
4) Brownian2: this routine was developed to produce Brownian trajectories by the OMEGA team as described (Rigano et al., 2018a and 2018b).
keywords:
  - Matlab
  - benchmarking
  - artificial-trajectory
  - trajectory-generator
license: GNU General Public License v.3
references:
  - type: article
    scope: Cite this paper every time you use the software
    authors:
      - family-names: Rigano
        given-names: Alessandro
        affiliation: University of Massachusetts Medical School
        email: alessandro.rigano@umassmed.edu
      - family-names: Galli
        given-names: Vanni
        affiliation: Scuola Universitaria Superiore della Svizzera Italiana (SUPSI)
      - family-names: Clark
        given-names: Jasmine M
        affiliation: Nell Hodgson Woodruff School of Nursing, Emory University
      - family-names: Pereira
        given-names: Lara E
        affiliation: Division of Sexual Transmitted Diseases Prevention, Centers for Disease Control and Prevention
      - family-names: Grossi
        given-names: Loris
        affiliation:  Scuola Universitaria Superiore della Svizzera Italiana (SUPSI)
      - family-names: Luban
        given-names: Jeremy
        affiliation: University of Massachusetts Medical School
        orcid: https://orcid.org/0000-0001-5650-4054
      - family-names: Giulietti
        given-names: Raffaello
        affiliation: Scuola Universitaria Superiore della Svizzera Italiana (SUPSI)
      - family-names: Leidi
        given-names: Tiziano
        affiliation: Scuola Universitaria Superiore della Svizzera Italiana (SUPSI)
      - family-names: Hunter
        given-names: Eric
        affiliation: Emory Vaccine Center at Yerkes National Primate Research Center
      - family-names: Valle
        given-names: Mario
        affiliation: Swiss National Supercomputing Centre
      - family-names: Sbalzarini
        given-names: Ivo F.
        affiliation: Max Planck Institute of Molecular Cell Biology and Genetics in Dresden
      - family-names: Strambio-De-Castillia
        given-names: Caterina
        affiliation: University of Massachusetts Medical School
        email: caterina.strambio@umassmed.edu
        orcid: https://orcid.org/0000-0002-1069-1816
    title: "OMEGA: a software tool for the management, analysis, and dissemination of 	intracellular trafficking data that incorporates motion type classification and quality control"
    year: 2018
    journal: bioRxiv.org
    doi: 10.1101/251850
    url: https://doi.org/10.1101/251850
  - type: article
    scope: Cite this paper every time you use the sofware
    authors:
      - family-names: Rigano
        given-names: Alessandro
        affiliation: University of Massachusetts Medical School
        email: alessandro.rigano@umassmed.edu
      - family-names: Strambio-De-Castillia
        given-names: Caterina
        affiliation: University of Massachusetts Medical School
        email: caterina.strambio@umassmed.edu
        orcid: https://orcid.org/0000-0002-1069-1816
    title: "An algorithm-centric Monte Carlo method to empirically quantify motion type estimation uncertainty in single-particle tracking"
    year: 2018
    journal: bioRxiv.org
    doi: 10.1101/379255
    url: https://doi.org/10.1101/379255
  - type: article
    scope: Cite this paper every time you use the software
    authors:
      - family-names: Sbalzarini
        given-names: Ivo F.
        affiliation: Institute of Computational Science, ETH Zu ̈rich, 8092 Zu ̈rich, Switzerland
        email: ivos@mpi-cbg.de
      - family-names: Koumoutsakos
        given-names: Petros
        affiliation: Institute of Computational Science, ETH Zu ̈rich, 8092 Zu ̈rich, Switzerland
        email: petros@inf.ethz.ch
    title: "Feature point tracking and trajectory analysis for video imaging in cell biology"
    year: 2005
    journal: Journal of Structural Biology
    doi: 10.1016/j.jsb.2005.06.002
    url: http://linkinghub.elsevier.com/retrieve/pii/S1047847705001267
  - type: article
    scope: Cite this paper every time you use the software
    authors:
      - family-names: Helmuth
        given-names: J.A.
        affiliation: Institute of Computational Science, ETH-Zurich, CH-8092 Zurich, Switzerland
      - family-names: Burckhardt
        given-names: C.J.
        affiliation: Institute of Zoology, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland
      - family-names: Koumoutsakos
        given-names: Petros
        affiliation: Institute of Computational Science, ETH-Zurich, CH-8092 Zurich, Switzerland
      - family-names: Gerber
        given-names: U.F.
        affiliation: Institute of Zoology, University of Zurich, Winterthurerstrasse 190, CH-8057 Zurich, Switzerland
      - family-names: Sbalzarini
        given-names: Ivo F.
        affiliation: Institute of Computational Science, ETH-Zurich, CH-8092 Zurich, Switzerland
        email: ivos@mpi-cbg.de
    title: "A novel supervised trajectory segmentation algorithm identifies distinct types of human adenovirus motion in host cells"
    year: 2007
    journal: Journal of Structural Biology
    doi: 10.1016/j.jsb.2007.04.003
    url: http://linkinghub.elsevier.com/retrieve/pii/S1047847707000822