Epidemiology Python Packages

epiweeks

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

244K 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.

32K 109 22

emod-malaria

Source files for building the IDM EMOD disease transmission model.

4K 105 52

emod-hiv

Source files for building the IDM EMOD disease transmission model.

3K 105 52

pyseqtarget

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

3K 2 0

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

epispot-nightly

The nightly version of the epispot package.

2K 18 6

covsirphy

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

2K 111 44

emod-common

Source files for building the IDM EMOD disease transmission model.

2K 105 52

seirsplus

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

2K 675 220

bio-epidemiology-ner

Recognize bio-medical entities from a text corpus

1K 133 9

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