Model list
Type
Pathogen
Host
Scale
Formalism
Code availability
| Model ID | Type | Pathogen(s) | Host(s) | Scale | Formalism | Code availability |
|---|---|---|---|---|---|---|
|
mod-lcqznvxg3 Banerjee et al. 2016 |
Mechanistic model | West Nile Virus | Hosts: Mice Vectors: None | within host/vector | ODE | Not available |
|
mod-mx10prl32 Ben-Shachar et al. 2018 |
Mechanistic model | Dengue virus | human | within host/vectorwithin-host | ODE | Open code |
|
mod-rnjm838hj Kramer et al. 2019a |
Mechanistic model | Pseudogymnoascus destructans | Little brown bats (Myotis lucifugus) | populationmetapopulation | Random sampling | Not reported |
|
mod-27xwz0df2 Pepin et al. 2020c |
Mechanistic model | African swine fever virus | Wild boar | populationmetapopulation | – | Not reported |
|
mod-4wj3p367h Lange et al. 2016a |
Mechanistic model | African swine fever virus | Wild boar | population | – | Not reported |
|
mod-wtzr6g9sd Pietschmann et al. 2015a |
Mechanistic model | African swine fever virus | Domestic pigs wild boar | population | – | Not reported |
|
mod-b09gzdst4 Pelletier et al. 2012a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-q1l5bfqdg Milliken 2017a |
Mechanistic model | Infectious salmon anaemia virus | Atlantic salmon | populationmetapopulation | Other: continuous-time Markov chain | Not reported |
|
mod-f9n8jx9j0 McClure et al. 2025a |
Mechanistic model | Chronic wasting disease prions | Cervids / deer | populationmetapopulation | PDE | Not reported |
|
mod-dnvwrls7r Brock et al. 2024a |
Mechanistic model | Bovine viral diarrhoea virus (BVDV) | domestic cattle herds | populationmetapopulation | – | Not reported |
|
mod-82d82q3zq Li et al. 2025b |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | poultry (farm-level flock) | population | – | Not reported |
|
mod-211n1bdf5 Tubay et al. 2025 |
Mechanistic model | Generic case-study on Swine Influenza | Pigs | Farm population | EMULSION | Open code |
|
mod-m7nfv63r0 Zhang et al. 2026a |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | poultry (intensive farms) | population | – | Not reported |
|
mod-jpzgm96sr Duve et al. 2026b |
Mechanistic model | West Nile virus (WNV) | birds mosquitoes equids humans | population | ODE | Open code |
|
mod-mckwsrgjk Zhu et al. 2021a |
Mechanistic model | H7N9 (HPAI and LPAI) | Domestic poultry humans | population | – | Not reported |
|
mod-19rcg8xf2 Dorigatti et al. 2010a |
Mechanistic model | H7N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-18j6lmdb8 Smith et al. 2011d |
Mechanistic model | H7N3 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-l5zqwx9ld Rorres et al. 2011b |
Mechanistic model | H5N2 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-82chfxf8c Hill et al. 2017b |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-g30pvnrfz Andronico et al. 2019a |
Mechanistic model | H5N8 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-hdqbwm0xh Cecilia et al. 2020 |
Mechanistic model | Rift Valley fever virus | cattle small ruminants Aedes vexans arabiensis Culex poicilipes Culex tritaeniorhynchus | population | ODE | Open code |
|
mod-mkwcbd1ts Muñoz et al. 2022a |
Mechanistic model | African swine fever virus (ASFV) | wild boar domestic pigs | populationmetapopulation | – | Not reported |
|
mod-kl05j7khj Picault et al. 2022 |
Mechanistic model | ASF | wild boar domestic pig | populationmetapopulation | Random sampling | Open code |
|
mod-8pgnmd2b2 Dankwa et al. 2022a |
Mechanistic model | African swine fever virus | Domestic pigs wild boar | populationmetapopulation | – | Not reported |
|
mod-cp3gz9f01 Beaunée et al. 2023 |
Mechanistic model | ASF | wild boar domestic pig | populationmetapopulation | Random sampling Tau-leaping | Open code |
|
mod-v0255594f Deka et al. 2025a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-jmp01fgxk Lee et al. 2018c |
Mechanistic model | H5N6 (HPAI) | Domestic poultry humans | population | – | Not reported |
|
mod-kr8l6qss4 Karami et al. 2026a |
Mechanistic model | Highly pathogenic avian influenza virus | Poultry wild birds | populationmetapopulation | – | Not reported |
|
mod-wk7kg3q26 Johnson et al. 2011a |
Mechanistic model | Batrachochytrium dendrobatidis | Frogs | population | Random sampling | Not reported |
|
mod-zm30s09t1 Meyer et al. 2016a |
Mechanistic model | Pseudogymnoascus destructans | Bats | population | – | Not reported |
|
mod-gntvjr0fj Hou et al. 2013a |
Mechanistic model | Brucella spp. | Sheep humans | population | ODE | Not reported |
|
mod-bt0kxw38w De et al. 2016a |
Mechanistic model | Japanese encephalitis virus | Pigs humans mosquitoes | population | ODE | Not reported |
|
mod-wwmt5mdnd Carlos et al. 2023a |
Mechanistic model | African swine fever virus hepatitis E virus antimicrobial-resistant Campylobacter | Urban wild boar humans | populationmetapopulation | Random sampling | Not reported |
|
mod-79kpzqt36 Duve et al. 2026c |
Mechanistic model | West Nile virus (WNV) | mosquitoes resident birds migratory birds | populationmetapopulation | PDE | Open code |
|
mod-nr4rxzp7k Chanchaidechachai et al. 2026a |
Mechanistic model | Highly pathogenic avian influenza virus | Broiler chickens layer chickens | metapopulation | – | Not reported |
|
mod-q0vhpxfx7 Lesnoff et al. 2004a |
Mechanistic model | Mycoplasma mycoides subsp. mycoides | Cattle | population | – | Not reported |
|
mod-p706rp2x6 Viet et al. 2004a |
Mechanistic model | Bovine viral diarrhoea virus (BVDV) | dairy cattle | population | Random sampling | Not reported |
|
mod-q2pmwb4ts Gubbins 2005e |
Mechanistic model | Scrapie agent (prion) | Sheep | metapopulation | Random sampling | Not reported |
|
mod-tfc648j97 Mariner et al. 2006b |
Mechanistic model | Mycoplasma mycoides subsp. mycoides | Cattle | population | Random sampling | Not reported |
|
mod-95m9t6n6b Mariner et al. 2006c |
Mechanistic model | Mycoplasma mycoides subsp. mycoides | Cattle | populationmetapopulation | – | Not reported |
|
mod-z5dxvrzh9 Chowell et al. 2006a |
Mechanistic model | Foot-and-mouth disease virus | Cattle | metapopulation | ODE | Not reported |
|
mod-4xxfbtn2n Kudahl et al. 2007a |
Mechanistic model | Mycobacterium avium subsp. paratuberculosis | Dairy cattle | population | – | Not reported |
|
mod-bsm62r3vs Boklund et al. 2008a |
Mechanistic model | Classical swine fever virus | Wild boar domestic pigs | populationmetapopulation | Random sampling | Not reported |
|
mod-fz5cxb96z Bavinck et al. 2009a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-szzqxmn63 Bos et al. 2009a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | population | – | Not reported |
|
mod-bg50crjnl Smith et al. 2010e |
Mechanistic model | Bovine viral diarrhoea virus (BVDV) | beef cattle cow-calf herds | population | – | Not reported |
|
mod-nvzg3xz5j Ducheyne et al. 2011a |
Mechanistic model | Bluetongue virus (BTV) | cattle sheep Culicoides biting midges | metapopulation | – | Not reported |
|
mod-kwz4blh1w Gulenkin et al. 2011a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-nf2fqlcd7 Marquetoux et al. 2012a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | population | – | Not reported |
|
mod-g72qvtfdp Gonzales et al. 2012a |
Mechanistic model | H7N3 (LPAI) | Domestic poultry | population | – | Not reported |
|
mod-h9wvp56jx Nigsch et al. 2013a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-xw394r9hf Patyk et al. 2013a |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | commercial and backyard poultry | metapopulation | – | Not reported |
|
mod-6fjddwj1g Gubbins et al. 2014f |
Mechanistic model | Schmallenberg virus | Cattle sheep Culicoides biting midges | metapopulation | – | Not reported |
|
mod-1l1zcgj8n Gubbins et al. 2014g |
Mechanistic model | Schmallenberg virus | Cattle sheep Culicoides biting midges | populationmetapopulation | – | Not reported |
|
mod-vq0m30873 Backer et al. 2015a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-jzvng3qpm Retkute et al. 2018a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-q9283146s Gubbins et al. 2020h |
Mechanistic model | Lumpy skin disease virus (LSDV) | cattle herds putative mechanical vectors not explicitly modeled as infected compartments | metapopulation | – | Not reported |
|
mod-k5p7knp1g Halasa et al. 2019c |
Mechanistic model | African swine fever virus | Wild boar | populationmetapopulation | – | Not reported |
|
mod-hzbb9ndbt Courtejoie et al. 2019 |
Mechanistic model | Bluetongue virus serotype 8 (BTV-8) | Cattle Sheep Culicoides biting midges (genus Culicoides) | populationmetapopulation | Random sampling | Not available |
|
mod-czx3z0r0f Han et al. 2020a |
Mechanistic model | Bovine viral diarrhoea virus (BVDV) | pastoral dairy and beef cattle | population | – | Not reported |
|
mod-lrqkvs5s2 Biemans et al. 2021a |
Mechanistic model | Mycobacterium avium subsp. paratuberculosis | Dairy cattle | population | Random sampling | Not reported |
|
mod-jxhw2j7nv Ezanno et al. 2022 |
Mechanistic model | MAP | cattle | populationmetapopulation | Random sampling | Open code |
|
mod-nn77llv19 Hayama et al. 2022 |
Mechanistic model | HPAI H5N8 | broiler chickens | population | – | Not reported |
|
mod-jk5fjptz1 Furusawa et al. 2024 |
Mechanistic model | ESBL producing E. coli | Poultry (chicken) | metapopulationQMRA towards humans | Gillespie algorithm | On request |
|
mod-s50qzgktt de Klerk et al. 2024a |
Mechanistic model | Bluetongue virus (BTV) | cattle sheep goats Culicoides biting midges | population | – | Not reported |
|
mod-r6c8n7ds4 Tabi et al. 2024a |
Mechanistic model | Bovine respiratory disease complex | Beef cattle | population | – | Not reported |
|
mod-297trf4kw Prathumwan et al. 2025a |
Mechanistic model | Lumpy skin disease virus (LSDV) | cattle blood-feeding insect vectors | population | ODE | Not reported |
|
mod-k0wskwvjv Ferreira et al. 2013a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-c2qvgr0jf Halasa et al. 2016d |
Mechanistic model | African swine fever virus | Domestic pigs | metapopulation | – | Not reported |
|
mod-bcwgjgpkt Halasa et al. 2016e |
Mechanistic model | African swine fever virus | Domestic pigs | metapopulation | – | Not reported |
|
mod-l16ndfd3h Shi et al. 2020a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-c8xqs5mxk White et al. 2001b |
Mechanistic model | Multiple mastitis pathogens | Dairy cattle | population | ODE | Not reported |
|
mod-z1s7ww6x3 Stringer et al. 1998a |
Mechanistic model | Scrapie agent (prion) | Sheep | population | PDE | Not reported |
|
mod-sw28mpmnn Hagenaars et al. 2001a |
Mechanistic model | Scrapie agent (prion) | Sheep | population | Other: branching-process approximation and stochastic simulations | Not reported |
|
mod-tx9cg5ksh Glass et al. 2002a |
Mechanistic model | Equine influenza virus | Horses | population | – | Not reported |
|
mod-wzdp9f6fn Balenghien et al. 2005a |
Mechanistic model | Mycoplasma mycoides subsp. mycoides | Cattle | population | ODE | Not reported |
|
mod-hll1t93rl Ward et al. 2008a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | population | – | Not reported |
|
mod-d4t5116bh Nickbakhsh et al. 2013a |
Mechanistic model | Highly pathogenic avian influenza virus | Poultry | metapopulation | – | Not reported |
|
mod-dr7pfglmt Guinat et al. 2015b |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-93903n253 Nielsen et al. 2017a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-xgnf0mfxx Molla et al. 2017a |
Mechanistic model | Lumpy skin disease virus | Cattle | population | – | Not reported |
|
mod-5kvrt6fr5 Ssematimba et al. 2019 |
Mechanistic model | HPAI H5N2 | turkeys | population | – | Not reported |
|
mod-0mklcw0bc Rawson et al. 2025 |
Mechanistic model | Highly pathogenic avian influenza A virus (H5N1) | Dairy cattle | populationmetapopulation | Random sampling | Open code |
|
mod-p40pm7nrq Hayes et al. 2026a |
Mechanistic model | African swine fever | Domestic pigs wild boar | population | Tau-leaping | Open code |
|
mod-l46vlmqqz Delabouglise et al. 2017a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-0xt5k7gl0 Ben Hu et al. 2017a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-476p0g5kv Schulz et al. 2018 |
Mechanistic model | LA-MRSA | domestic pigs | population | Random sampling | On request |
|
mod-tzpw85s0l Haider et al. 2019a |
Mechanistic model | Bluetongue virus (BTV) | cattle Culicoides biting midges | population | Other: vector cohort rate summation | Not reported |
|
mod-8z1j52nfg O’Neill et al. 2020a |
Mechanistic model | African swine fever virus | Wild boar | population | – | Not reported |
|
mod-t7tr3rfc5 Hobbelen et al. 2020 |
Mechanistic model | HPAI H5N8 | chickens ducks | population | – | Not reported |
|
mod-f0nlzhj4t Yoo et al. 2021a |
Mechanistic model | H5N6 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-3xcb36t67 Bonney et al. 2021b |
Mechanistic model | H5N2 (LPAI) | Domestic poultry | population | – | Not reported |
|
mod-75m3g1sfb Lentz et al. 2023 |
Phenomenological model | African Swine Fever | Wild boar | population | – | Open code |
|
mod-gt3421hc5 Renu et al. 2025a |
Mechanistic model | Lumpy skin disease virus (LSDV) | cattle | population | Other: fractional-order differential equations | Not reported |
|
mod-t97pdsb4g Llanos-Soto et al. 2025a |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | mallards mute swans backyard poultry | population | ODE | Not reported |
|
mod-7gcg5f5nx Herzog et al. 2024a |
Mechanistic model | Peste des petits ruminants virus | Cattle goats | population | – | Not reported |
|
mod-5h1wf5479 Pandit et al. 2013a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry wild birds | population | – | Not reported |
|
mod-nkk3p1kwn Costard et al. 2015a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-lcxb3p0rd Pouillot et al. 2004a |
Mechanistic model | Mycobacterium avium subsp. paratuberculosis | Cattle | population | – | Not reported |
|
mod-j56pmbbr4 LeMenach et al. 2005b |
Mechanistic model | Foot-and-mouth disease virus | Cattle sheep pigs | metapopulation | Random sampling | Not reported |
|
mod-2cct9qrkv Blackwood et al. 2013a |
Mechanistic model | Rabies virus | Common vampire bats (Desmodus rotundus) | populationmetapopulation | – | Not reported |
|
mod-gsd2mrc27 Fournié et al. 2018a |
Mechanistic model | Peste des petits ruminants virus (PPRV) | Sheep (Ovis aries) goats (Capra hircus) | populationmetapopulation | Random sampling | Open code |
|
mod-8j3m283br van den Broek 2020a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-3hd2hhr5f Tuncer et al. 2021 |
Mechanistic model | ZIKV | Humans Aedes aegypti mosquitoes | within host/vector | ODE | Open code |
|
mod-jlw5x7cxd Horton et al. 2023a |
Mechanistic model | West Nile virus (WNV) | two avian species mosquito vector | population | Other: continuous-time Markov chain | Not reported |
|
mod-2c1lglldw Alanazi et al. 2026a |
Mechanistic model | Lumpy skin disease virus (LSDV) | cattle blood-feeding insect vectors | population | ODE | Not reported |
|
mod-cbmhkw61b Stegeman et al. 2004a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-4n2f15572 Tiensin et al. 2007 |
Mechanistic model | HPAI H5N1 | chickens | population | – | Not reported |
|
mod-pll5mh1p9 Scheel et al. 2007a |
Mechanistic model | Infectious salmon anaemia virus | Atlantic salmon | metapopulation | – | Not reported |
|
mod-jsqd4lpn6 Gubbins et al. 2007i |
Mechanistic model | Bluetongue virus | Cattle sheep Culicoides biting midges | population | Other: next-generation / R0 formulation | Not reported |
|
mod-pmr52mlq9 Baguelin et al. 2009a |
Mechanistic model | Equine influenza virus | Thoroughbred horses | populationmetapopulation | – | Not reported |
|
mod-9gbzw81q8 Fournié et al. 2010a |
Mechanistic model | Highly pathogenic avian influenza virus (H5N1) | Poultry in live bird markets | populationmetapopulation | Random sampling | Not reported |
|
mod-x85k2fctb Aldrin et al. 2011a |
Mechanistic model | Infectious salmon anaemia virus | Atlantic salmon | metapopulation | – | Not reported |
|
mod-d7z5dw2hg Walker et al. 2012b |
Mechanistic model | H5N1 (HPAI) | Domestic poultry wild birds | population | – | Not reported |
|
mod-0n9xg94bc Pepin et al. 2021d |
Mechanistic model | African swine fever virus | Wild boar | populationmetapopulation | – | Not reported |
|
mod-6jcd85gnn Lambert et al. 2025 |
Mechanistic model | HPAI | chickens ducks turkeys | population | Tau-leaping | Open code |
|
mod-2fmpj4tpb Cecilia et al. 2025 |
Phenomenological model | Zika virus | cynomolgus macaques squirrel monkeys Aedes albopictus | within host/vector | non-linear mixed effect model | Open code |
|
mod-4rk17t8hz Shaw et al. 2024a |
Mechanistic model | African swine fever virus (ASFV) | wild boar | population | – | Not reported |
|
mod-st7gsm2nd Le Menach et al. 2006c |
Mechanistic model | Highly pathogenic avian influenza virus (H5N1) | Commercial poultry | metapopulation | Random sampling | Not reported |
|
mod-9vvzsdtnl Green et al. 2006a |
Mechanistic model | Foot-and-mouth disease virus | Cattle sheep | metapopulation | – | Not reported |
|
mod-qtxzhnhsf Krkošek et al. 2009a |
Mechanistic model | Sea lice (Lepeophtheirus salmonis) | Pink salmon chum salmon sea lice | population | PDE | Not reported |
|
mod-1r7wss2wh Courcoul et al. 2010a |
Mechanistic model | Coxiella burnetii | Dairy cattle | population | Other: discrete-time individual-based Markov model | Not reported |
|
mod-153vdpfmb Cecilia et al. 2021 |
Mechanistic model | none (population dynamics of an insect vector) | Glossina palpalis gambiensis | population | object-oriented programming | Open code |
|
mod-l7m00dwd6 White et al. 1995c |
Mechanistic model | Mycobacterium bovis | European badgers | populationmetapopulation | Random sampling | Not reported |
|
mod-j4sjx2bc5 Langwig et al. 2017a |
Mechanistic model | Pseudogymnoascus destructans | Little brown bats (Myotis lucifugus) | population | – | Not reported |
|
mod-k4j6hb99z Hayes et al. 2024 |
Mechanistic model | ASF | domestic pig wild boar | populationmetapopulation | Tau-leaping | Open code |
|
mod-z5c1sxnxh de Wit et al. 2024 |
Mechanistic model | Usutu Virus | Blackbirds | metapopulation | ODE | Open code |
|
mod-n16wwmdll Van der Roest et al. 2025 |
Mechanistic model | None | None | within host/vectorpopulation | Bayesian MCMC | Open code |
|
mod-b71bt96bj Yang et al. 2021a |
Mechanistic model | African swine fever virus | Wild boar | population | – | Not reported |
|
mod-f4d4vmt0g Hallam et al. 2010a |
Mechanistic model | Pseudogymnoascus destructans | Bats | populationmetapopulation | – | Not reported |
|
mod-hlt2s09k5 Seymour et al. 2021a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-9kcwx051w Bett et al. 2012a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | population | – | Not reported |
|
mod-xk3qzvkj6 Schulz et al. 2016 |
Mechanistic model | Classical swine fever | wild boar | population | Random sampling | On request |
|
mod-qvhr61v81 Mur et al. 2017a |
Mechanistic model | African swine fever virus | Domestic pigs | metapopulation | – | Not reported |
|
mod-fsk6xls8s Ssematimba et al. 2017b |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-26dgpxlns Guinat et al. 2017c |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-bsnhwdpjx Taylor et al. 2020a |
Mechanistic model | African swine fever virus | Domestic pigs wild boar | population | – | Not reported |
|
mod-3jcgv72k6 Faverjon et al. 2020a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-lbx3l0d39 Lee et al. 2020d |
Mechanistic model | African swine fever virus (ASFV) | domestic pig farms | metapopulation | – | Not reported |
|
mod-jqlfptc4s Vergne et al. 2020a |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-rm0hpc0rb Gervasi et al. 2021a |
Mechanistic model | African swine fever virus | Wild boar | populationmetapopulation | – | Not reported |
|
mod-mn99vzqd8 Vergne et al. 2021 |
Mechanistic model | HPAI H5N8 | ducks | population | Random sampling | Open code |
|
mod-g3nw891k1 Galvis et al. 2022a |
Mechanistic model | Porcine reproductive and respiratory syndrome virus | Domestic pigs | metapopulation | – | Not reported |
|
mod-m27jpcr1n Pepin et al. 2022e |
Mechanistic model | African swine fever virus | Wild pigs (Sus scrofa) | populationmetapopulation | Random sampling | Not reported |
|
mod-pf38p4tvl Ferguson et al. 2001a |
Mechanistic model | Foot-and-mouth disease virus | Cattle sheep pigs | metapopulation | – | Not reported |
|
mod-pb7r29587 Keeling et al. 2001a |
Mechanistic model | Foot-and-mouth disease virus | Cattle sheep pigs | metapopulation | – | Not reported |
|
mod-znnnmsd5d Tuncer et al. 2013a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry wild birds | population | – | Not reported |
|
mod-hxlz7lzt3 Chen et al. 2022a |
Mechanistic model | H5Nx (HPAI) | Domestic poultry wild birds | population | – | Not reported |
|
mod-sw3trhq6b Ladreyt et al. 2023a |
Mechanistic model | JEV | Culex spp. pigs ducks chickens cattle dogs humans | population | ODE | On request |
|
mod-6c3zxfnrx Magori-Cohen et al. 2012a |
Mechanistic model | Lumpy skin disease virus | Cattle arthropod vectors | population | – | Not reported |
|
mod-xkbj427sz Hogerwerf et al. 2013a |
Mechanistic model | Coxiella burnetii | Dairy goats | population | – | Not reported |
|
mod-r26lr0qr0 Kim et al. 2010a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-mzl73976n Arruda et al. 2017a |
Mechanistic model | Porcine reproductive and respiratory syndrome virus | Domestic pigs | metapopulation | – | Not reported |
|
mod-jq293bt8v Linthout et al. 2024 |
Mechanistic model | West Nile virus | Mosquito (Culex pipiens and Aedes japonicus) human birds | population | ODE | Not available |
|
mod-g8qjh4gsl Damman et al. 2015a |
Mechanistic model | Bovine viral diarrhoea virus | Beef cattle | population | – | Not reported |
|
mod-b9zt6tmsh Qi et al. 2019a |
Mechanistic model | Bovine viral diarrhoea virus | Dairy cattle | populationmetapopulation | – | Not reported |
|
mod-qsh6c6mn9 Picault et al. 2022 |
Mechanistic model | BRD complex | cattle (young animals) | batch | Random sampling | Open code |
|
mod-kv2mq9v3b Cristancho-Fajardo et al. 2022 |
Mechanistic model | BVD | cattle | populationmetapopulation | Random sampling | Open code |
|
mod-j8f5lg3cr Bouchez-Zacria et al. 2023a |
Mechanistic model | Mycobacterium bovis | Cattle European badgers | populationmetapopulation | – | Not reported |
|
mod-pzmt0b5z6 Merca et al. 2025a |
Mechanistic model | Mannheimia haemolytica | Young cattle (bull batches) | population | – | Open code |
|
mod-72v7pc0vf Delecroix et al. 2026a |
Mechanistic model | Lumpy skin disease virus | Cattle arthropod vectors | population | Gillespie algorithm | Open code |
|
mod-bmx2dpg62 Boender et al. 2007a |
Mechanistic model | H7N7 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-b105dtvqd Walker et al. 2010c |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | population | – | Not reported |
|
mod-1wzt1494b Sumner et al. 2017a |
Mechanistic model | Bluetongue virus Schmallenberg virus | Cattle sheep Culicoides biting midges | metapopulation | – | Not reported |
|
mod-tfd4zrzxl Hill et al. 2018c |
Mechanistic model | H5N1 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-5qtfnscwj Cecilia et al. 2022 |
Mechanistic model | Rift Valley fever virus | cattle sheep goat Aedes spp. Culex spp. | within host/vector | ODE | Open code |
|
mod-85l0tt6cl Pinotti et al. 2024 |
Mechanistic model | Avian influenza virus | Poultry ducks | populationmetapopulation | Event-driven | Open code |
|
mod-gp1mggpw9 Lord et al. 2023 |
Mechanistic model | ZIKV DENV | Aedes aegypti mosquitoes | within host/vector | Tau-leaping ODE | Open code |
|
mod-0qbhqr7zw Konzen et al. 2024a |
Mechanistic model | Mycobacterium bovis | European badgers | populationmetapopulation | – | Open code |
|
mod-ss6p2d6q0 Delecroix et al. 2025 |
Mechanistic model | West Nile virus | Mosquito Birds (generic species A and B) Humans Horses | population | Gillespie algorithm | Open code |
|
mod-3wgww2jj9 Loisel et al. 2025 |
Mechanistic model | CHIKV DENV ZIKV | Aedes ageypti Aedes albopictus Aedes polynesiensis Aedes geniculatus | Within vector | Random sampling | Open code |
|
mod-gw0gt0dkq Davis et al. 2026a |
Mechanistic model | Highly pathogenic avian influenza A(H5N1) | Poultry | metapopulation | – | Open code |
|
mod-b5jt2745w Dürr et al. 2015a |
Mechanistic model | Rabies virus | Domestic dogs | population | – | Not reported |
|
mod-c11mwrqvj Anderson et al. 2019a |
Mechanistic model | Rabies virus | Domestic dogs | population | – | Open code |
|
mod-3gns81020 Brookes et al. 2019a |
Mechanistic model | Rabies virus | Free-roaming domestic dogs | population | – | Not reported |
|
mod-x0562pw8z Gabriele-Rivet et al. 2021a |
Mechanistic model | Rabies virus | Dingoes and wild canids | populationmetapopulation | – | Not reported |
|
mod-qtc7kdktq Gold et al. 2021a |
Mechanistic model | Rabies virus | Domestic dogs | populationmetapopulation | Gillespie algorithm | Open code |
|
mod-pp2snhplt Ladreyt et al. 2022 |
Mechanistic model | JEV | Culex spp. pigs ducks chicken dogs cattle humans | population | ODE | On request |
|
mod-16fz21594 Costa et al. 2024a |
Mechanistic model | West Nile virus (WNV) | birds mosquitoes (Culex spp.) | population | Other: ODE and Gillespie algorithm | Open code |
|
mod-2bddrjrkt Szmaragd et al. 2009a |
Mechanistic model | Bluetongue virus | Cattle sheep Culicoides biting midges | populationmetapopulation | – | Not reported |
|
mod-rnkgv6c3j Charron et al. 2013 |
Mechanistic model | vector-borne pathogen | None | population | Random sampling | Not available |
|
mod-hx325fzsh Hosseini et al. 2013a |
Mechanistic model | Influenza A virus (including H5N1) | Poultry | populationmetapopulation | – | Not reported |
|
mod-hc3bb25fk Jennelle et al. 2014a |
Mechanistic model | Chronic wasting disease prions | White-tailed deer | population | – | Not reported |
|
mod-d7xlj8n8n Bekara et al. 2014a |
Mechanistic model | Mycobacterium bovis | Cattle | population | – | Not reported |
|
mod-nt8wj5rm5 Ssematimba et al. 2015c |
Mechanistic model | Mycoplasma mycoides subsp. mycoides | Cattle | population | Random sampling | Not reported |
|
mod-cdm3vchjb Barongo et al. 2015b |
Mechanistic model | African swine fever virus | Domestic pigs | population | – | Not reported |
|
mod-mhn20hf2q Barongo et al. 2016c |
Mechanistic model | African swine fever virus | Free-ranging domestic pigs | population | – | Not reported |
|
mod-81vnbmw97 Bonney et al. 2018c |
Mechanistic model | H5N2 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-shqm4h0xr Lee et al. 2019e |
Mechanistic model | Highly pathogenic avian influenza virus | Chickens ducks | metapopulation | ODE | Not reported |
|
mod-nk483g2mm Porphyre et al. 2019a |
Mechanistic model | African horse sickness virus | Horses zebra Culicoides imicola | populationmetapopulation | – | Not reported |
|
mod-dfjzr8nbk Salvador et al. 2020a |
Mechanistic model | H5N6 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-c3w4kmvrs Smith et al. 2021f |
Mechanistic model | Mycobacterium bovis | European badgers | populationmetapopulation | – | Not reported |
|
mod-2qn23f1ss Moriarty et al. 2025a |
Mechanistic model | African swine fever virus porcine reproductive and respiratory syndrome virus Actinobacillus pleuropneumoniae | Domestic pigs | metapopulation | Random sampling | Open code |
|
mod-nkd1tflps Fathelrahman et al. 2026a |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | poultry farms | metapopulation | – | Not reported |
|
mod-jpt672h55 Fontaine et al. 2018 |
Phenomenological model | Dengue | Aedes aegypti | within host/vector | – | Open code |
|
mod-cbvs53rmz Lequime et al. 2020 |
Mechanistic model | ZIKV | Humans Aedes albopictus | within host/vectorpopulation | – | Open code |
|
mod-ck736ch64 Johnson et al. 2024 |
Mechanistic model | DENV | Aedes aegypti mosquitoes | within host/vector | ODE | Open code |
|
mod-x6tjc3xmh Smirnova et al. 2013a |
Mechanistic model | H5N1 (HPAI) | Domestic poultry humans | population | – | Not reported |
|
mod-lsd62bb64 Dorea et al. 2010a |
Mechanistic model | Highly pathogenic avian influenza A virus (H5/H5N1) | broiler chickens commercial poultry farms | populationmetapopulation | – | Not reported |
|
mod-3t8sbc7cn Rorres, et al. 2011c |
Mechanistic model | H5N2 (HPAI) | Domestic poultry | metapopulation | – | Not reported |
|
mod-p987wrct0 Bates et al. 2003a |
Mechanistic model | Foot-and-mouth disease virus | Cattle sheep goats pigs | populationmetapopulation | Random sampling | Not reported |
|
mod-6dvclv25m Smith et al. 2013g |
Mechanistic model | Mycobacterium bovis | Cattle | population | – | Not reported |
|
mod-lx6n4pdr3 Li et al. 2017c |
Mechanistic model | H7N9 (LPAI) | Domestic poultry humans | population | – | Not reported |
|
mod-g3m6770c7 Planchand et al. 2025 |
Mechanistic model | HPAI | Ducks | population | Tau-leaping | Open code |
|
mod-wszgrkkt1 Lotz et al. 2002a |
Mechanistic model | White spot syndrome virus | Whiteleg shrimp (Litopenaeus vannamei) | population | – | Not reported |
|
mod-hg4z5hh60 Bai et al. 2019a |
Mechanistic model | H7N9 (HPAI and LPAI) | Domestic poultry humans | population | – | Not reported |
|
mod-mdvtn5jvl Jarra et al. 2026 |
Mechanistic model | Rift Valley fever virus (RVFV) | Cattle (Bos taurus) | populationmetapopulation | Tau-leaping | Open code |
|
mod-jj903rdvt Sonnenburg et al. 2016 |
Mechanistic model | Classical swine fever | Wild boar | population | Random sampling | On request |
|
mod-psbjl1h76 Guyver-Fletcher et al. 2024 |
Mechanistic model | FMD | cattle | metapopulation | Tau-leaping | Open code |