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  1. cloning cloning Public

    Python implementation of the cloning algorithm for the computation of large deviation functions.

    Jupyter Notebook

  2. gLoop gLoop Public

    Software supporting M. Cavallaro, et al., 3′-5′ crosstalk contributes to transcriptional bursting. Genome Biol 22, 56 (2021). https://doi.org/10.1186/s13059-020-02227-5

    R 1

  3. rancovr rancovr Public

    rancovr: Cluster detection in R with RAndom Neighbourhood COVeRing

    R

  4. dTASEP-fit dTASEP-fit Public

    Software supporting M. Cavallaro et al. "Bayesian inference of polymerase dynamics over the exclusion process" (2021) arXiv/2109.05100

    Python

  5. Inverse-Laplace-transform Inverse-Laplace-transform Public

    C link to FORTRAN 77 routine 662 for the inversion of Laplace transforms

    Fortran 1 1

  6. outbreak-detection outbreak-detection Public

    Software supporting M. Cavallaro, et al., Cluster detection with random neighbourhood covering: Application to invasive Group A Streptococcal disease. PLoS Comput Biol 18(11): e1010726 (2022) https…

    R