Pinned Repositories
BasicCpp
Basic course in C/C++
Bookletise
The smartest way to page a pdf file for booklets.
cell-size
cloning
Python implementation of the cloning algorithm for the computation of large deviation functions.
dTASEP-fit
Software supporting M. Cavallaro et al. "Bayesian inference of polymerase dynamics over the exclusion process" (2021) arXiv/2109.05100
gLoop
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
Inverse-Laplace-transform
C link to FORTRAN 77 routine 662 for the inversion of Laplace transforms
outbreak-detection
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://doi.org/10.1371/journal.pcbi.1010726.
rancovr
rancovr: Cluster detection in R with RAndom Neighbourhood COVeRing
SARS-CoV-2-spatiotemporal-surveillance
R scripts used in M Cavallaro, L Dyson, MJ Tildesly, D Todkill & MJ Keeling (2023) Spatio-temporal surveillance and early detection of SARS-CoV-2 variants of concern. J. R. Soc. Interface. 20: 20230410. 20230410.
mcavallaro's Repositories
mcavallaro/gLoop
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
mcavallaro/Inverse-Laplace-transform
C link to FORTRAN 77 routine 662 for the inversion of Laplace transforms
mcavallaro/SARS-CoV-2-spatiotemporal-surveillance
R scripts used in M Cavallaro, L Dyson, MJ Tildesly, D Todkill & MJ Keeling (2023) Spatio-temporal surveillance and early detection of SARS-CoV-2 variants of concern. J. R. Soc. Interface. 20: 20230410. 20230410.
mcavallaro/BasicCpp
Basic course in C/C++
mcavallaro/Bookletise
The smartest way to page a pdf file for booklets.
mcavallaro/cell-size
mcavallaro/CH925
mcavallaro/cloning
Python implementation of the cloning algorithm for the computation of large deviation functions.
mcavallaro/CovidC
Software supporting M. Cavallaro, et al., Contrasting factors associated with COVID-19-related ICU admission and death outcomes in hospitalised patients by means of Shapley values. PLoS Comput Biol 17(6): e1009121 (2021) https://doi.org/10.1371/journal.pcbi.1009121
mcavallaro/CRTSB
mcavallaro/dTASEP-fit
Software supporting M. Cavallaro et al. "Bayesian inference of polymerase dynamics over the exclusion process" (2021) arXiv/2109.05100
mcavallaro/outbreak-detection
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://doi.org/10.1371/journal.pcbi.1010726.
mcavallaro/pymc
PyMC: Bayesian Stochastic Modelling in Python (for PyMC3: https://github.com/pymc-devs/pymc3)
mcavallaro/pymc3
Probabilistic Programming in Python: Bayesian Modeling and Probabilistic Machine Learning with Theano
mcavallaro/rancovr
rancovr: Cluster detection in R with RAndom Neighbourhood COVeRing
mcavallaro/dTASEP-WASEP
mcavallaro/mcavallaro.github.io
Massimo's personal website
mcavallaro/ML4AMR
Software supporting M. Cavallaro, et al., Informing antimicrobial stewardship with explainable AI. PLOS Digit Health 2(1): e0000162 (2023) https://doi.org/10.1371/journal.pdig.0000162
mcavallaro/MonkeypoxUK
Some code for monkeypox
mcavallaro/shap
A game theoretic approach to explain the output of any machine learning model.
mcavallaro/TV-PRO-seq
scripts for TV-PRO-seq
mcavallaro/ufuncs
mcavallaro/zeroclickinfo-goodies
DuckDuckGo instant answer plugins based on Perl functions
mcavallaro/zeroclickinfo-spice
DuckDuckGo instant answer plugins based on JavaScript APIs