THE HAW YANG LAB

SOFTWARE
  1. PAUL curvilinear: Super Line-Localization 2D and 3D. The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike), maintained by S. Yin and moderated by H. Yang, and are available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at github:
    DOI
    For 2D PAUL curvilinear,
    https://github.com/PrincetonUniversity/PAULcurvilinear/tree/master.
    Please cite the following reference,
    S. Yin, M. Tien, and H. Yang, Biophys. J., 118, 2458-2469 (2020).

    For 3D PAUL curvilinear,
    https://github.com/PrincetonUniversity/PAULcurvilinear/tree/3D-branch.
    Please cite the following reference,
    S. Yin, M. J. Amin, N. T. Emerson, and H. Yang, Proc. SPIE, Applications of Digital Image Processing XLIII, 11510, 115101L (2020).
  2. Learning discrete states from noisy time series. The source codes are made available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at
    https://github.com/PrincetonUniversity/GaussianEMBIC.
    The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike), maintained by H. Li and moderated by H. Yang.
    DOI
    Please cite the following reference,
    H. Li and H. Yang, J. Phys. Chem. B, 123, 689-701 (2019).
  3. Diffusion/velocity change points detection. The source codes are made available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at
    https://github.com/PrincetonUniversity/DiffusionVelocityChangePoint.
    The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike), maintained by N. Song and S. Yin, and moderated by H. Yang.
    DOI
    Please cite the following reference,
    S. Yin, N. Song, and H. Yang, Biophys. J., 115, 217 (2018).
  4. LabView code for a general purpose single-object spectroscopy microscopy. The source codes are made available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at
    https://github.com/PrincetonUniversity/GeneralPurposeSOS.
    The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike), maintained by H. Li and moderated by H. Yang.
    DOI
    Please cite the following reference,
    H. Li and H. Yang, J. Chem. Phys., 148, 123316 (2018).
  5. Parallelization of the change-point detection algorithm, suitable for the initial analysis of single-particle tracking and emission intensity changes. The source codes are made available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at
    https://github.com/PrincetonUniversity/ParallelChangePoint.
    The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike), maintained by N. Song and moderated by H. Yang.
    DOI
    Please cite the following reference,
    N. Song and H. Yang, J. Phys. Chem. A, 121, 5100-5109 (2017).
  6. Photon-by-photon maximum-Information analysis of single-molecule FRET trajectories.
    Source code now available in Linux environment (x86_32 & x86_64), new version coming soon.

    Please cite the following reference,
    L.P. Watkins and H. Yang, Biophys. J., 86, 4015-4029 (2004).

  7. Photon-by-photon detection of single-molecule emission intensity change points. (Corrigenda for implementation, last update 2009.08.08)
    Source code available for Linux (Ubuntu LTS 20.04), OSX Catalina (Darwin 19), and Windows MinGW (Win7 tested) command-line environments with the GNU Scientific Library. Current distribution version = 2.0 (first public release), developed and maintained by H. Yang.
    The source codes are under the Creative Commons license CC BY-NC-SA (Attribution-NonCommercial-ShareAlike).
    DOI
    The source codes are also available through the Yang lab (yanglab-at-princeton-edu), or through the Princeton github repository at https://github.com/PrincetonUniversity/OriginalChangePoint-Poisson, which contains the most up-to-date information and revision.

    Please cite the following reference,
    L.P. Watkins and H. Yang, J. Phys. Chem. B, 109, 617-628 (2005).

  8. Detection of changes in Brownian diffusion dynamics.
    Source code available in Linux / Darwin command line environment with the GNU Scientific Library. Current distribution version = 1.11 (build 20081005), maintained by H. Yang.

    Please cite the following reference,
    D. Montiel, H. Cang, and H. Yang, J. Phys. Chem. B, 110, 19763-19770 (2006).

Part of the software development was based upon work supported by the National Science Foundation under Grant No. CHE-0349284, by the U.S. Department of Energy under contracts No. DE-AC03-76SF00098 and KP1501021, by the Human Frontier Science Program, and by the Princeton University.

Updated: 2020.08.25.