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dralshehri
epiweeks

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

244K 20 6
msberends
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-Hub
emod-malaria

Source files for building the IDM EMOD disease transmission model.

4K 105 52
EMOD-Hub
emod-hiv

Source files for building the IDM EMOD disease transmission model.

3K 105 52
CausalInference
pyseqtarget

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

3K 2 0
pzivich
zepid

Epidemiology analysis package

2K 155 32
metawards
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
epispot-nightly

The nightly version of the epispot package.

2K 18 6
lisphilar
covsirphy

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

2K 111 44
EMOD-Hub
emod-common

Source files for building the IDM EMOD disease transmission model.

2K 105 52
ryansmcgee
seirsplus

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

2K 675 220
dreji18
bio-epidemiology-ner

Recognize bio-medical entities from a text corpus

1K 133 9
Xcept-Health
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
pablocarderam
opqua

Epidemiological modeling framework for pathogen population genetics and evolution.

1K 18 7
ecohealthalliance
epitator

EpiTator annotates epidemiological information in text documents. It is the natural language processing framework that powers GRITS and EIDR Connect.

824 42 10
strathlab-data
dii-calculator

A Python package for calculating the Dietary Inflammatory Index (DII) from nutrient intake data

439 0 0
NAU-CCL
epymorph

EpiMoRPH spatial disease modeling

427 8 3
emdemor
cov19

Modelling epidemic curve with SIRD model.

369 1 0
griano
epistoch

Epidemics Models with Random Infectious Period

369 1 1
mlandis
phyddle

Software for phylogenetic model exploration with deep learning

342 11 0
DataForScience
epidemik

Compartmental Epidemic Models in Python

337 14 2
Danderson123
amira-amr

A tool to detect acquired AMR genes directly from long read sequencing data.

331 28 2
epispot
epispot

A tool for modeling infectious diseases.

328 18 6
idas-durham
june

A framework for high resolution Agent Based Modelling.

280 52 17
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