Epidemiology Python Packages

epiweeks

Epidemiological weeks calculation based on CDC (MMWR) and ISO week numbering systems

246K 20 6

amr

Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial properties by using evidence-based methods, as described in https://doi.org/10.18637/jss.v104.i03.

28K 109 22

emod-malaria

Source files for building the IDM EMOD disease transmission model.

4K 105 52

pyseqtarget

Estimation of the observational analogs of the intention-to-treat and per-protocol effects of hypothetical treatment strategies

3K 2 0

emod-hiv

Source files for building the IDM EMOD disease transmission model.

3K 105 52

zepid

Epidemiology analysis package

2K 155 32

metawards

MetaWards disease metapopulation analysis and modelling software. Professional geographical SIR model with a flexible plugin architecture to support complex scenario modelling

2K 14 6

emod-common

Source files for building the IDM EMOD disease transmission model.

2K 105 52

epispot-nightly

The nightly version of the epispot package.

2K 18 6

seirsplus

Models of SEIRS epidemic dynamics with extensions, including network-structured populations, testing, contact tracing, and social distancing.

2K 675 220

covsirphy

CovsirPhy: Python library for COVID-19 analysis with phase-dependent SIR-derived ODE models.

1K 111 44

episia

Python toolkit for epidemiological modelling and reporting. SIR/SEIR/SEIRD compartmental models, sensitivity analysis, interactive visualisations, and automated HTML/Markdown/JSON reports, built for low-resource health contexts.

1K 4 0