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Tools</b></a><ul><li><img src="/i/leaf.gif"><a href="/info/docs/tools/vep/" title="Ensembl Variant Effect Predictor (VEP)">Ensembl Variant Effect Predictor (VEP)</a></li><li><img src="/i/leaf.gif"><a href="/info/docs/tools/simulator/" title="Variant Simulator">Variant Simulator</a></li><li class="last"><img src="/i/leaf.gif"><a href="/info/docs/tools/vcftoped/" title="VCF to PED Converter">VCF to PED Converter</a></li></ul></li><li class="top_level parent"><img src="/i/open.gif" class="toggle _info_docs_api_" alt=""><a href="/info/docs/api/"><b>API Documentation</b></a><ul><li><img src="/i/leaf.gif"><a href="/info/docs/api/api_installation.html" title="API Installation">API Installation</a></li><li><img src="/i/leaf.gif"><a href="/info/docs/api/api_git.html" title="API Installation - Git">API Installation - Git</a></li><li><img src="/i/leaf.gif"><a href="/info/docs/api/registry.html" title="API Registry">API Registry</a></li><li><img src="/i/leaf.gif"><a 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src="/i/leaf.gif" class="toggle _info_docs_Doxygen_" alt=""><a href="/info/docs/Doxygen/"><b>Doxygen Perl documentation</b></a></li><li class="top_level"><img src="/i/leaf.gif" class="toggle _info_docs_das_" alt=""><a href="/info/docs/das/"><b>DAS (Distributed Annotation System)</b></a></li><li class="top_level"><img src="/i/leaf.gif" class="toggle eHive.html" alt=""><a href="eHive.html"><b>eHive production system</b></a></li><li class="last parent"><img src="/i/open.gif" class="toggle _info_docs_webcode_" alt=""><a href="/info/docs/webcode/"><b>Web code</b></a><ul><li><img src="/i/leaf.gif"><a href="/info/docs/webcode/linking.html" title="Linking in to Ensembl">Linking in to Ensembl</a></li><li><img src="/i/leaf.gif"><a href="/info/docs/webcode/mirror/" title="Installing an Ensembl website">Installing an Ensembl website</a></li><li><img src="/i/leaf.gif"><a href="/info/docs/webcode/custom/" title="Basic customisation">Basic customisation</a></li><li class="last"><img 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Software">API & Software</a></li></ul> <div id="content"><div id="static"> <h1>API & Software</h1> <p>All of the software created by the Ensembl project is open source and freely available to download from our <a rel="external" href="https://github.com/Ensembl">GitHub repository</a>.</p> <h2>Perl API</h2> <p>The Perl API provides an abstraction layer for accessing the genomic databases. Our <a href="/info/docs/api/">documentation</a> includes tutorials for typical tasks, and you can also browse the <a href="/info/docs/Doxygen/">module-by-module POD</a> output in the Doxygen web format. If you are unable to install the API, you might prefer to use our <a href="/info/data/virtual_machine.html">virtual machine</a> which comes with the API and VEP (see below) pre-installed. The Ensembl API is compatible with Perl version 5.14.</p> <h2>REST</h2> <p>The Ensembl <a href=https://rest.ensembl.org>REST</a> server allows you access to Ensembl data using any programming language. We provide a second REST server - <a href="http://grch37.rest.ensembl.org">grch37.rest.ensembl.org</a> - for access to data on the human GRCh37 assembly.</p> <h2>Tools</h2> <p>In addition to the API, we provide a number of Perl scripts that use the API to run common data analyses, such as the <a href="/info/docs/tools/vep/">VEP</a> (Variant Effect Predictor). All of these can be run on the command line, and some can also be run via a web front end, so you don't even need to install any software! <a href="/info/docs/tools/">Learn more</a>...</p> <h2>eHive production system</h2> <p>Many of our pipelines and back-end data processing is managed using <a href="eHive.html">eHive</a>, a job flow system written in Perl.</p> <h2>Web code</h2> <p>You can also run a local copy of this website by <a href="/info/docs/webcode/">installing our codebase</a> and associated Perl dependencies. Please note that this is a non-trivial task, and we only support installation on Linux. For help with other operating systems as well as general support with custom development, we recommend joining our developers' <a rel="external" href="/info/about/contact/mailing.html">mailing list</a>. 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value=Clupea_harengus|Athene_cunicularia|Poecilia_mexicana|Mus_musculus_129S1_SvImJ|Cyprinus_carpio_huanghe|Notechis_scutatus|Cyprinus_carpio_german_mirror|Gorilla_gorilla|Balaenoptera_musculus|Gambusia_affinis|Ovis_aries_polled_dorset|Canis_lupus_dingo|Manacus_vitellinus|Ovis_aries_kermani|Macaca_nemestrina|Paramormyrops_kingsleyae|Poecilia_latipinna|Oncorhynchus_kisutch|Gopherus_agassizii|Microtus_ochrogaster|Struthio_camelus_australis|Pan_paniscus|Sarcophilus_harrisii|Phasianus_colchicus|Sus_scrofa_ossabaw_miniature|Sphaeramia_orbicularis|Bison_bison_bison|Dipodomys_ordii|Callorhinchus_milii|Cyprinus_carpio_hebao_red|Panthera_pardus|Ovis_aries_east_friesian|Neogobius_melanostomus|Gadus_morhua_celtic_sea|Salmo_salar_european_origin_alta|Falco_tinnunculus|Cottoperca_gobio|Moschus_moschiferus|Cricetulus_griseus_chok1gshd|Accipiter_nisus|Sus_scrofa_bama_miniature|Dicentrarchus_labrax|Microcebus_murinus|Crocodylus_porosus|Myripristis_murdjan|Ictalurus_punctatus|Seriola_dumerili|Pogona_vitticeps|Salmo_trutta|Equus_asinus|Neolamprologus_brichardi|Varanus_komodoensis|Cyprinus_carpio_carpio|Poecilia_reticulata|Papio_anubis|Camarhynchus_parvulus|Capra_hircus_xinong_saanen_dairy|Mastacembelus_armatus|Cavia_aperea|Canis_lupus_familiaris|Gallus_gallus_GCA_000002315.5|Junco_hyemalis|Rattus_norvegicus|Calidris_pugnax|Nothoprocta_perdicaria|Latimeria_chalumnae|Sus_scrofa_berkshire|Periophthalmus_magnuspinnatus|Peromyscus_maniculatus_bairdii|Phocoena_sinus|Chrysemys_picta_bellii|Sciurus_vulgaris|Petromyzon_marinus|Monopterus_albus|Ovis_aries_chinese_merino|Theropithecus_gelada|Mus_musculus_CAST_EiJ|Myotis_lucifugus|Mus_musculus|Mus_musculus_CBA_J|Sus_scrofa_usmarc|Ovis_aries_romanov|Esox_lucius|Zalophus_californianus|Sus_scrofa_euw1|Ovis_aries_white_dorper|Kryptolebias_marmoratus|Sus_scrofa|Danio_rerio|Bos_taurus|Anas_platyrhynchos|Gallus_gallus|Oryzias_latipes_hsok|Salarias_fasciatus|Maylandia_zebra|Laticauda_laticaudata|Choloepus_hoffmanni|Chelydra_serpentina|Zonotrichia_albicollis|Sinocyclocheilus_grahami|Chlorocebus_sabaeus|Sus_scrofa_bamei|Spermophilus_dauricus|Tetraodon_nigroviridis|Drosophila_melanogaster|Bubo_bubo|Rhinopithecus_roxellana|Ciona_savignyi|Xiphophorus_maculatus|Mus_caroli|Salvator_merianae|Cyanistes_caeruleus|Oryzias_melastigma|Mus_pahari|Piliocolobus_tephrosceles|Anabas_testudineus|Sus_scrofa_jinhua|Chelonoidis_abingdonii|Numida_meleagris|Anser_cygnoides|Mus_musculus_AKR_J|Dasypus_novemcinctus|Urocitellus_parryii|Propithecus_coquereli|Dromaius_novaehollandiae|Sus_scrofa_pb115|Rattus_norvegicus_SHRUtx|Oryzias_latipes|Amphilophus_citrinellus|Ursus_maritimus|Pan_troglodytes|Mus_musculus_C3H_HeJ|Capra_hircus_saanen_dairy|Naja_naja|Vulpes_vulpes|Octodon_degus|Sinocyclocheilus_anshuiensis|Hucho_hucho|Lonchura_striata_domestica|Cynoglossus_semilaevis|Capra_hircus_blackbengal|Cervus_hanglu_yarkandensis|Procavia_capensis|Saimiri_boliviensis_boliviensis|Neovison_vison|Echinops_telfairi|Scleropages_formosus|Ovis_aries_hu|Takifugu_rubripes|Otus_sunia|Acanthochromis_polyacanthus|Pelodiscus_sinensis|Marmota_marmota_marmota|Pundamilia_nyererei|Sus_scrofa_largewhite|Ciona_intestinalis|Canis_lupus_familiarisboxer|Xenopus_tropicalis|Sus_scrofa_hampshire|Gadus_morhua|Bos_grunniens|Catagonus_wagneri|Ursus_thibetanus_thibetanus|Saccharomyces_cerevisiae|Macaca_mulatta|Pteropus_vampyrus|Astatotilapia_calliptera|Stegastes_partitus|Oncorhynchus_mykiss|Mesocricetus_auratus|Sus_scrofa_pietrain|Lates_calcarifer|Mus_musculus_C57BL_6NJ|Vombatus_ursinus|Pongo_abelii|Oryctolagus_cuniculus|Buteo_japonicus|Cricetulus_griseus_picr|Mus_musculus_BALB_cJ|Denticeps_clupeoides|Canis_lupus_familiarisgreatdane|Capra_hircus|Hippocampus_comes|Cercocebus_atys|Caenorhabditis_elegans|Serinus_canaria|Cairina_moschata_domestica|Fundulus_heteroclitus|Sorex_araneus|Erinaceus_europaeus|Catharus_ustulatus|Sus_scrofa_tibetan|Taeniopygia_guttata|Jaculus_jaculus|Apteryx_rowi|Leptobrachium_leishanense|Mus_spretus|Anas_platyrhynchos_platyrhynchos|Loxodonta_africana|Homo_sapiens|Seriola_lalandi_dorsalis|Pygocentrus_nattereri|Sus_scrofa_nihs_2020|Ovis_aries_qiaoke|Canis_lupus_familiarisbasenji|Mus_spicilegus|Sus_scrofa_duroc|Sphenodon_punctatus|Lepidothrix_coronata|Lynx_canadensis|Mandrillus_leucophaeus|Mola_mola|Prolemur_simus|Vicugna_pacos|Delphinapterus_leucas|Salmo_salar|Sus_scrofa_ningxiang|Ovis_aries_rambouillet|Panthera_tigris_altaica|Gasterosteus_aculeatus_freshwater_bot|Scophthalmus_maximus|Terrapene_carolina_triunguis|Amazona_collaria|Mus_musculus_A_J|Castor_canadensis|Oreochromis_aureus|Ursus_americanus|Haplochromis_burtoni|Mus_musculus_FVB_NJ|Gasterosteus_aculeatus_marine_syl|Cavia_porcellus|Monodelphis_domestica|Meriones_unguiculatus|Sander_lucioperca|Salmo_salar_north_american_atlantic_salmon|Echeneis_naucrates|Aotus_nancymaae|Amphiprion_ocellaris|Coturnix_japonica|Larimichthys_crocea|Melopsittacus_undulatus|Cyclopterus_lumpus|Ochotona_princeps|Sparus_aurata|Carassius_auratus|Corvus_moneduloides|Apteryx_haastii|Chrysolophus_pictus|Labrus_bergylta|Mus_musculus_NZO_HlLtJ|Pavo_cristatus|Canis_lupus_familiarisgermanshepherd|Rhinopithecus_bieti|Oncorhynchus_tshawytscha|Macaca_fascicularis|Mus_musculus_DBA_2J|Malurus_cyaneus_samueli|Camelus_dromedarius|Electrophorus_electricus|Gopherus_evgoodei|Eptatretus_burgeri|Nothobranchius_furzeri|Oryzias_sinensis|Lepisosteus_oculatus|Anas_zonorhyncha|Cebus_imitator|Mustela_putorius_furo|Erpetoichthys_calabaricus|Physeter_catodon|Anser_brachyrhynchus|Mus_musculus_WSB_EiJ|Amphiprion_percula|Notamacropus_eugenii|Calidris_pygmaea|Sus_scrofa_wuzhishan|Poecilia_formosa|Callithrix_jacchus|Ornithorhynchus_anatinus|Mus_musculus_PWK_PhJ|Strix_occidentalis_caurina|Pelusios_castaneus|Panthera_leo|Tupaia_belangeri|Gasterosteus_aculeatus_marine_bam|Bos_taurus_hybrid|Parus_major|Rhinolophus_ferrumequinum|Felis_catus|Zosterops_lateralis_melanops|Sus_scrofa_meishan_GCA_017957985.1|Chinchilla_lanigera|Gallus_gallus_GCA_016700215.2|Xiphophorus_couchianus|Ailuropoda_melanoleuca|Mus_musculus_NOD_ShiLtJ|Pseudonaja_textilis|Gasterosteus_aculeatus|Parambassis_ranga|Strigops_habroptila|Monodon_monoceros|Equus_caballus|Ovis_aries_texel|Nomascus_leucogenys|Suricata_suricatta|Cricetulus_griseus_crigri|Carlito_syrichta|Ictidomys_tridecemlineatus|Meleagris_gallopavo|Heterocephalus_glaber_male|Ficedula_albicollis|Astyanax_mexicanus_pachon|Oryzias_javanicus|Sus_scrofa_landrace|Rattus_norvegicus_WKYBbb|Erythrura_gouldiae|Bos_mutus|Bos_indicus_hybrid|Salmo_salar_north_american_origin_brian|Mus_musculus_LP_J|Betta_splendens|Tursiops_truncatus|Podarcis_muralis|Gouania_willdenowi|Fukomys_damarensis|Oreochromis_niloticus|Sus_scrofa_rongchang|Phascolarctos_cinereus|Stachyris_ruficeps|Astyanax_mexicanus|Sinocyclocheilus_rhinocerous|Cyprinodon_variegatus|Nannospalax_galili|Aquila_chrysaetos_chrysaetos|Geospiza_fortis|Apteryx_owenii|Sus_scrofa_meishan|Otolemur_garnettii|Oryzias_latipes_hni|Anolis_carolinensis|Rattus_norvegicus_SHRSPBbbUtx|Colobus_angolensis_palliatus|Heterocephalus_glaber_female> 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