epi-sim: A library for simulating epidemics as birth-death processes.

[ library, mit, simulation ] [ Propose Tags ]

A library for simulating epidemics, with a focus on phylodynamics and observation models.

Although this package supports the definition of new models there are some that are implemented already in the Epidemic.Model module. Implemented models include:

  1. Birth-Death-Sampling-Catastrophe-Occurrence-Disaster (see Epidemic.Model.BDSCOD)

  2. Inhomogeneous Birth-Death-Sampling (see Epidemic.Model.InhomogeneousBDS)

  3. Inhomogeneous BDSCOD (see Epidemic.Model.InhomogeneousBDSCOD)

  4. Logistic Birth-Death-Sampling-Disaster (see Epidemic.Model.LogisticBDSD)

There are more details in the documentation of the Epidemic module.


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Versions [RSS] [faq] 0.2.2.0, 0.4.2, 0.7.0
Change log ChangeLog.md
Dependencies aeson (>=1.4.7 && <1.6), base (>=4.14.1 && <4.15), bytestring (>=0.10.10 && <0.11), hspec (>=2.7.6 && <2.8), mwc-random (>=0.14.0 && <0.16), primitive (>=0.7.0 && <0.8), statistics (>=0.15.2 && <0.16), vector (>=0.12.1 && <0.13) [details]
License MIT
Copyright 2020 Alexander Zarebski
Author Alexander Zarebski
Maintainer aezarebski@gmail.com
Category Simulation
Home page https://github.com/aezarebski/epi-sim#readme
Bug tracker https://github.com/aezarebski/epi-sim/issues
Source repo head: git clone https://github.com/aezarebski/epi-sim
Uploaded by AlexanderZarebski at 2021-07-19T11:03:16Z
Distributions NixOS:0.7.0
Downloads 231 total (17 in the last 30 days)
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Status Hackage Matrix CI
Docs available [build log]
Last success reported on 2021-07-19 [all 1 reports]

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Readme for epi-sim-0.7.0

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epi-sim

A library for simulating stochastic epidemic models, with a focus on phylodynamics and observation models.

Epidemic events

A realisation of the model is represented by a list of EpidemicEvents which describe the events that occurred.

Available models

Although this package supports the definition of new models there are some that are implemented already in the Epidemic.Model module. Implemented models include:

  1. Birth-Death-Sampling-Catastrophe-Occurrence-Disaster (see BDSCOD.hs)
  2. Inhomogeneous Birth-Death-Sampling (see InhomogeneousBDS.hs)
  3. Inhomogeneous Birth-Death-Sampling-Catastrophe-Occurrence-Disaster (see InhomogeneousBDSCOD.hs)
  4. Logistic Birth-Death-Sampling-Disaster (see LogisticBDSD.hs)