From c54b53e12c5914bc9ad68a39315c0ee2e565adc6 Mon Sep 17 00:00:00 2001 From: DOH-LMT2303 Date: Fri, 8 Nov 2024 01:21:45 +0000 Subject: [PATCH] Add mapping file host to host genus and host type --- .../defaults/host_hostgenus_hosttype_map.tsv | 284 ++++++++++++++++++ 1 file changed, 284 insertions(+) create mode 100644 ingest/defaults/host_hostgenus_hosttype_map.tsv diff --git a/ingest/defaults/host_hostgenus_hosttype_map.tsv b/ingest/defaults/host_hostgenus_hosttype_map.tsv new file mode 100644 index 0000000..a1d6b5e --- /dev/null +++ b/ingest/defaults/host_hostgenus_hosttype_map.tsv @@ -0,0 +1,284 @@ +"Host" "Host_Genus" "Host_Type" +"Homo sapiens" "Homo" "Human" +"Culex pipiens" "Culex" "Mosquito" +"Culex annulirostris" "Culex" "Mosquito" +"Culex perexiguus" "Culex" "Mosquito" +"Ochlerotatus communis" "Ochlerotatus" "Mosquito" +"Anopheles maculipennis" "Anopheles" "Mosquito" +"Culex quinquefasciatus" "Culex" "Mosquito" +"Anopheles atroparvus" "Anopheles" "Mosquito" +"Culex modestus" "Culex" "Mosquito" +"Culex tarsalis" "Culex" "Mosquito" +"Culex restuans" "Culex" "Mosquito" +"Culiseta melanura" "Culiseta" "Mosquito" +"Aedes cinereus" "Aedes" "Mosquito" +"Culex" "Culex" "Mosquito" +"Culex erraticus" "Culex" "Mosquito" +"Culex salinarius" "Culex" "Mosquito" +"Coquillettidia perturbans" "Coquillettidia" "Mosquito" +"Psorophora ferox" "Psorophora" "Mosquito" +"Culiseta morsitans" "Culiseta" "Mosquito" +"Ochlerotatus canadensis" "Ochlerotatus" "Mosquito" +"Culex tritaeniorhynchus" "Culex" "Mosquito" +"Culex vishnui" "Culex" "Mosquito" +"Culex neavei" "Culex" "Mosquito" +"Culex poicilipes" "Culex" "Mosquito" +"Culex bitaeniorhynchus" "Culex" "Mosquito" +"Culex perfuscus" "Culex" "Mosquito" +"Culex antennatus" "Culex" "Mosquito" +"Aedes vexans" "Aedes" "Mosquito" +"Culex pseudovishnui" "Culex" "Mosquito" +"Culex gelidus" "Culex" "Mosquito" +"Coquillettidia" "Coquillettidia" "Mosquito" +"Aedes dalzieli" "Aedes" "Mosquito" +"Mansonia uniformis" "Mansonia" "Mosquito" +"Anopheles stephensi" "Anopheles" "Mosquito" +"Culex sitiens" "Culex" "Mosquito" +"Culiseta longiareolata" "Culiseta" "Mosquito" +"Culex pipiens sensu lato" "Culex" "Mosquito" +"Culex theileri" "Culex" "Mosquito" +"Culex univittatus" "Culex" "Mosquito" +"Culicidae" "Culicidae" "Mosquito" +"Aedes albopictus" "Aedes" "Mosquito" +"Anopheles hyrcanus" "Anopheles" "Mosquito" +"Coquillettidia richiardii" "Coquillettidia" "Mosquito" +"Anopheles plumbeus" "Anopheles" "Mosquito" +"Culex pipiens complex" "Culex" "Mosquito" +"Psorophora" "Psorophora" "Mosquito" +"Culex stigmatosoma" "Culex" "Mosquito" +"Culex erythrothorax" "Culex" "Mosquito" +"Culex nigripalpus" "Culex" "Mosquito" +"Culex pipiens pipiens" "Culex" "Mosquito" +"Culex whitmorei" "Culex" "Mosquito" +"Anopheles bancroftii" "Anopheles" "Mosquito" +"Culex squamosus" "Culex" "Mosquito" +"Anopheles farauti" "Anopheles" "Mosquito" +"Culex pullus" "Culex" "Mosquito" +"Culiseta" "Culiseta" "Mosquito" +"Aedes sp." "Aedes" "Mosquito" +"Anopheles sp." "Anopheles" "Mosquito" +"Anopheles pauliani" "Anopheles" "Mosquito" +"Anopheles coustani" "Anopheles" "Mosquito" +"Aedeomyia madagascarica" "Aedeomyia" "Mosquito" +"Ochlerotatus dorsalis" "Ochlerotatus" "Mosquito" +"Ochlerotatus trivittatus" "Ochlerotatus" "Mosquito" +"Culiseta inornata" "Culiseta" "Mosquito" +"Ochlerotatus flavescens" "Ochlerotatus" "Mosquito" +"Ochlerotatus spencerii" "Ochlerotatus" "Mosquito" +"Uranotaenia unguiculata" "Uranotaenia" "Mosquito" +"Ochlerotatus caspius" "Ochlerotatus" "Mosquito" +"Ochlerotatus sollicitans" "Ochlerotatus" "Mosquito" +"Ochlerotatus triseriatus" "Ochlerotatus" "Mosquito" +"Ochlerotatus cantator" "Ochlerotatus" "Mosquito" +"Ochlerotatus sticticus" "Ochlerotatus" "Mosquito" +"Aedes rossicus" "Aedes" "Mosquito" +"Uranotaenia" "Uranotaenia" "Mosquito" +"Culex interrogator" "Culex" "Mosquito" +"Anopheles messeae" "Anopheles" "Mosquito" +"Pica pica" "Pica" "Bird" +"Corvus cornix" "Corvus" "Bird" +"Accipiter gentilis" "Accipiter" "Bird" +"Cuculus canorus" "Cuculus" "Bird" +"Falco peregrinus" "Falco" "Bird" +"Corvus" "Corvus" "Bird" +"Corvus brachyrhynchos" "Corvus" "Bird" +"Aphelocoma californica" "Aphelocoma" "Bird" +"Aphelocoma" "Aphelocoma" "Bird" +"Accipiter cooperii" "Accipiter" "Bird" +"Cyanocitta cristata" "Cyanocitta" "Bird" +"Corvus corax" "Corvus" "Bird" +"Corvus frugilegus" "Corvus" "Bird" +"Corvus corone" "Corvus" "Bird" +"Accipiter" "Accipiter" "Bird" +"Falco tinnunculus" "Falco" "Bird" +"Accipiter striatus" "Accipiter" "Bird" +"Pica nuttalli" "Pica" "Bird" +"Falco sparverius" "Falco" "Bird" +"Pica hudsonia" "Pica" "Bird" +"Accipiter nisus" "Accipiter" "Bird" +"Falco" "Falco" "Bird" +"Corvus ossifragus" "Corvus" "Bird" +"Falco columbarius" "Falco" "Bird" +"Falco punctatus" "Falco" "Bird" +"Equus caballus" "Equus" "Horse" +"Equus caballus x Equus asinus" "Equus" "Horse" +"Hyalomma marginatum" "Hyalomma" "Tick" +"Hyalomma scupense" "Hyalomma" "Tick" +"Dermacentor marginatus" "Dermacentor" "Tick" +"Rhipicephalus guilhoni" "Rhipicephalus" "Tick" +"Hyalomma" "Hyalomma" "Tick" +"Hyalomma marginatum marginatum" "Hyalomma" "Tick" +"Rhipicephalus pulchellus" "Rhipicephalus" "Tick" +"Hyalomma plumbeum plumbeum" "Hyalomma" "Tick" +"Camelus bactrianus" "Camelus" "Other" +"Rallus aquaticus" "Rallus" "Other" +"Garrulus glandarius" "Garrulus" "Other" +"Crocodylus niloticus" "Crocodylus" "Other" +"Anatidae" "Anatidae" "Other" +"Corvidae" "Corvidae" "Other" +"Strigidae" "Strigidae" "Other" +"Columbidae" "Columbidae" "Other" +"Turdus philomelos" "Turdus" "Other" +"Sturnus vulgaris" "Sturnus" "Other" +"Turdus migratorius" "Turdus" "Other" +"Haliaeetus leucocephalus" "Haliaeetus" "Other" +"Mimus polyglottos" "Mimus" "Other" +"Haemorhous mexicanus" "Haemorhous" "Other" +"Phasianinae" "Phasianinae" "Other" +"Phoenicopterus roseus" "Phoenicopterus" "Other" +"Euphagus cyanocephalus" "Euphagus" "Other" +"Passeridae" "Passeridae" "Other" +"Passer domesticus" "Passer" "Other" +"Galliformes" "Galliformes" "Other" +"Tyto alba" "Tyto" "Other" +"Buteo swainsoni" "Buteo" "Other" +"Hirundo rustica" "Hirundo" "Other" +"Accipitridae" "Accipitridae" "Other" +"Sylvia atricapilla" "Sylvia" "Other" +"Strix nebulosa" "Strix" "Other" +"Athene noctua" "Athene" "Other" +"Phalacrocorax carbo" "Phalacrocorax" "Other" +"Aegypius monachus" "Aegypius" "Other" +"Pandion haliaetus" "Pandion" "Other" +"Asio otus" "Asio" "Other" +"Gallus gallus" "Gallus" "Other" +"Coloeus monedula" "Coloeus" "Other" +"Podiceps cristatus" "Podiceps" "Other" +"Trichoglossus moluccanus" "Trichoglossus" "Other" +"Phoenicopterus chilensis" "Phoenicopterus" "Other" +"Parus major" "Parus" "Other" +"Phoenicopterus sp." "Phoenicopterus" "Other" +"Pyrrhocorax graculus" "Pyrrhocorax" "Other" +"Buteo" "Buteo" "Other" +"Bubo scandiacus" "Bubo" "Other" +"Serinus canaria" "Serinus" "Other" +"Passer sp." "Passer" "Other" +"Phoenicopterus ruber" "Phoenicopterus" "Other" +"Cyanistes caeruleus" "Cyanistes" "Other" +"Lathamus discolor" "Lathamus" "Other" +"Mergus squamatus" "Mergus" "Other" +"Bombycilla garrulus" "Bombycilla" "Other" +"Phylloscopus collybita" "Phylloscopus" "Other" +"Vicugna pacos" "Vicugna" "Other" +"Mastomys erythroleucus" "Mastomys" "Other" +"Canis lupus familiaris" "Canis" "Other" +"Equus" "Equus" "Other" +"Panthera leo" "Panthera" "Other" +"Larus michahellis" "Larus" "Other" +"Turdus merula" "Turdus" "Other" +"Columba palumbus" "Columba" "Other" +"Egretta garzetta" "Egretta" "Other" +"Streptopelia decaocto" "Streptopelia" "Other" +"Equus asinus" "Equus" "Other" +"Apus apus" "Apus" "Other" +"Hirundinidae" "Hirundinidae" "Other" +"Curruca conspicillata" "Curruca" "Other" +"Strix aluco" "Strix" "Other" +"Aves" "Aves" "Other" +"Anser" "Anser" "Other" +"Larus crassirostris" "Larus" "Other" +"Strix nebulosa lapponica" "Strix" "Other" +"Chiroptera" "Chiroptera" "Other" +"Buteo buteo" "Buteo" "Other" +"Pluvialis apricaria" "Pluvialis" "Other" +"Phoenicoparrus andinus" "Phoenicoparrus" "Other" +"Trichoglossus haematodus" "Trichoglossus" "Other" +"Spheniscus humboldti" "Spheniscus" "Other" +"Equus ferus" "Equus" "Other" +"Prunella modularis" "Prunella" "Other" +"Acrocephalus dumetorum" "Acrocephalus" "Other" +"Crocodylus porosus" "Crocodylus" "Other" +"Giraffa giraffa" "Giraffa" "Other" +"Ovis aries" "Ovis" "Other" +"Syncerus caffer" "Syncerus" "Other" +"Alopochen aegyptiaca" "Alopochen" "Other" +"Cygnus olor" "Cygnus" "Other" +"Spinus tristis" "Spinus" "Other" +"Poecile atricapillus" "Poecile" "Other" +"Buteo lineatus" "Buteo" "Other" +"Baeolophus inornatus" "Baeolophus" "Other" +"Pheucticus melanocephalus" "Pheucticus" "Other" +"Calypte costae" "Calypte" "Other" +"Zenaida macroura" "Zenaida" "Other" +"Parulidae" "Parulidae" "Other" +"Bubo virginianus" "Bubo" "Other" +"Buteo jamaicensis" "Buteo" "Other" +"Baeolophus bicolor" "Baeolophus" "Other" +"Bos taurus" "Bos" "Other" +"Clanga pomarina" "Clanga" "Other" +"Quelea quelea" "Quelea" "Other" +"Streptopelia capicola" "Streptopelia" "Other" +"Oena capensis" "Oena" "Other" +"Oriolus flavocinctus" "Oriolus" "Other" +"Larus delawarensis" "Larus" "Other" +"Colaptes auratus" "Colaptes" "Other" +"Quiscalus quiscula" "Quiscalus" "Other" +"Cardinalis cardinalis" "Cardinalis" "Other" +"Sciurus carolinensis" "Sciurus" "Other" +"Columba livia" "Columba" "Other" +"Camelus dromedarius" "Camelus" "Other" +"Nestor notabilis" "Nestor" "Other" +"Pelecanus erythrorhynchos" "Pelecanus" "Other" +"Phalacrocorax auritus" "Phalacrocorax" "Other" +"Sternula antillarum" "Sternula" "Other" +"Branta canadensis" "Branta" "Other" +"Anas platyrhynchos" "Anas" "Other" +"Pelecanus" "Pelecanus" "Other" +"Loriini" "Loriini" "Other" +"Sternula" "Sternula" "Other" +"Quiscalus major" "Quiscalus" "Other" +"Gymnogyps californianus" "Gymnogyps" "Other" +"Asio flammeus" "Asio" "Other" +"Coragyps atratus" "Coragyps" "Other" +"Pelecanus occidentalis" "Pelecanus" "Other" +"Cygnus buccinator" "Cygnus" "Other" +"Charadrius melodus" "Charadrius" "Other" +"Ictinia mississippiensis" "Ictinia" "Other" +"Buteo regalis" "Buteo" "Other" +"Calidris alba" "Calidris" "Other" +"Sturnidae" "Sturnidae" "Other" +"Mimus" "Mimus" "Other" +"Larus smithsonianus" "Larus" "Other" +"Actitis macularius" "Actitis" "Other" +"Chroicocephalus ridibundus" "Chroicocephalus" "Other" +"Hylocichla mustelina" "Hylocichla" "Other" +"Toxostoma rufum" "Toxostoma" "Other" +"Poecile carolinensis" "Poecile" "Other" +"Meleagris gallopavo" "Meleagris" "Other" +"Ixodoidea" "Ixodoidea" "Other" +"Rodentia" "Rodentia" "Other" +"Lanius ludovicianus" "Lanius" "Other" +"Sciuridae" "Sciuridae" "Other" +"Mus musculus" "Mus" "Other" +"Aegithalos caudatus" "Aegithalos" "Other" +"Phasianus colchicus" "Phasianus" "Other" +"Haliaeetus albicilla" "Haliaeetus" "Other" +"Crocodylus moreletii" "Crocodylus" "Other" +"Alectorobius capensis" "Alectorobius" "Other" +"Orcinus orca" "Orcinus" "Other" +"Laridae" "Laridae" "Other" +"Mesocricetus auratus" "Mesocricetus" "Other" +"Sciurus niger" "Sciurus" "Other" +"Aquila chrysaetos" "Aquila" "Other" +"Rousettus leschenaultii" "Rousettus" "Other" +"Pelophylax ridibundus" "Pelophylax" "Other" +"Agelaius phoeniceus" "Agelaius" "Other" +"Aquila fasciata" "Aquila" "Other" +"Aquila adalberti" "Aquila" "Other" +"Coracopsis vasa" "Coracopsis" "Other" +"Cardinalis" "Cardinalis" "Other" +"Fulica" "Fulica" "Other" +"Quiscalus" "Quiscalus" "Other" +"Phalacrocoracidae" "Phalacrocoracidae" "Other" +"Butorides virescens" "Butorides" "Other" +"Ardeidae" "Ardeidae" "Other" +"Dumetella" "Dumetella" "Other" +"Cricetinae" "Cricetinae" "Other" +"Bubulcus ibis" "Bubulcus" "Other" +"Spatula querquedula" "Spatula" "Other" +"Bonasa umbellus" "Bonasa" "Other" +"Ciconiidae" "Ciconiidae" "Other" +"Ichthyaetus leucophthalmus" "Ichthyaetus" "Other" +"Molothrus ater" "Molothrus" "Other" +"Mephitis mephitis" "Mephitis" "Other" +"Platycercus" "Platycercus" "Other"