{"id":15326,"date":"2016-03-23T13:52:20","date_gmt":"2016-03-23T13:52:20","guid":{"rendered":"http:\/\/democontent.codex-themes.com\/thegem-apps\/?page_id=15326"},"modified":"2025-10-30T14:44:26","modified_gmt":"2025-10-30T18:44:26","slug":"homepage-app-landing","status":"publish","type":"page","link":"https:\/\/www.opencravat.org\/","title":{"rendered":"Homepage"},"content":{"rendered":"<div class=\"wpb-content-wrapper\"><p>[vc_row full_width=&#8221;stretch_row_content&#8221; full_height=&#8221;yes&#8221; thegem_fix_full_height=&#8221;true&#8221; css=&#8221;.vc_custom_1731697738734{margin-bottom: 0px !important;background-image: url(https:\/\/www.opencravat.org\/wp-content\/uploads\/2024\/11\/26359-scaled.jpg?id=33449) !important;background-position: center !important;background-repeat: no-repeat !important;background-size: cover !important;}&#8221; custom_css_code=&#8221;JTQwbWVkaWElMjAlMjhtYXgtd2lkdGglM0ElMjAzNjBweCUyOSUyMCU3QiUwQSUyMCUyMCUyMCUyMC50aXRsZS14bGFyZ2UlMjAlN0IlMEElMjAlMjAlMjAlMjAlMjAlMjAlMjAlMjBmb250LXNpemUlM0ElMjAyOHB4JTNCJTBBJTIwJTIwJTIwJTIwJTIwJTIwJTIwJTIwbGluZS1oZWlnaHQlM0ElMjA0MnB4JTNCJTBBJTIwJTIwJTIwJTIwJTdEJTBBJTdEJTBBLmN1c3RvbS1ib3JkZXIlN0IlMEElMjAlMjAlMjAlMjB3aWR0aCUzQSUyMDE4NnB4JTNCJTBBJTdE&#8221;][vc_column][vc_raw_html css=&#8221;&#8221;]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[\/vc_raw_html][\/vc_column][\/vc_row][vc_row css=&#8221;.vc_custom_1458824445393{margin-top: -160px !important;}&#8221;][vc_column offset=&#8221;vc_hidden-md vc_hidden-sm vc_hidden-xs&#8221;][vc_column_text css=&#8221;&#8221;]<a class=\"mouse-scroll scroll-to-anchor\" style=\"border-width: 2px; border-color: #fff;\" href=\"#get-started\">mouse<\/a>[\/vc_column_text][\/vc_column][\/vc_row][vc_row css=&#8221;.vc_custom_1729197315327{margin-bottom: 0px !important;}&#8221; el_id=&#8221;get-started&#8221;][vc_column]<div class=\"clearboth\"><\/div><style>#thegem-divider-69e8420dee61a {margin-top: 120px !important;}<\/style><div id=\"thegem-divider-69e8420dee61a\" class=\"gem-divider  \" style=\"\" ><\/div>[vc_column_text css=&#8221;&#8221;]<\/p>\n<div class=\"title-h1\" style=\"text-align: center;\">Get Started Any Way You Want<\/div>\n<p>[\/vc_column_text]<div class=\"clearboth\"><\/div><style>#thegem-divider-69e8420dee664 {margin-top: 70px !important;}<\/style><div id=\"thegem-divider-69e8420dee664\" class=\"gem-divider  \" style=\"\" ><\/div>[\/vc_column][\/vc_row][vc_row content_placement=&#8221;top&#8221; css=&#8221;.vc_custom_1726654484123{margin-bottom: 0px !important;padding-bottom: 95px !important;}&#8221;][vc_column width=&#8221;1\/2&#8243; css=&#8221;.vc_custom_1726630310749{margin-top: 0px !important;border-right-width: 1px !important;padding-top: 0px !important;padding-right: 50px !important;border-right-style: solid !important;border-color: #e2e2e2 !important;}&#8221;][vc_custom_heading text=&#8221;Install via pip&#8221; font_container=&#8221;tag:h4|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;&#8221; link=&#8221;url:https%3A%2F%2Fpypi.org%2Fproject%2Fopen-cravat%2F&#8221;][vc_single_image image=&#8221;33372&#8243; img_size=&#8221;80&#215;97&#8243; onclick=&#8221;custom_link&#8221; img_link_target=&#8221;_blank&#8221; css=&#8221;&#8221; link=&#8221;https:\/\/pypi.org\/project\/open-cravat\/&#8221;][vc_column_text css=&#8221;&#8221;]OpenCRAVAT is a versatile tool for variant annotation and analysis. You can easily install it using Python&#8217;s package manager, pip. Use the command below to get OpenCRAVAT up and running on your system:[\/vc_column_text][vc_column_text css=&#8221;&#8221;]<\/p>\n<pre class=\"EnlighterJSRAW\" data-enlighter-language=\"generic\">python3 -m pip install open-cravat<\/pre>\n<p>[\/vc_column_text][\/vc_column][vc_column width=&#8221;1\/2&#8243; css=&#8221;.vc_custom_1725673740873{padding-left: 50px !important;}&#8221;][vc_custom_heading text=&#8221;Installers&#8221; font_container=&#8221;tag:h4|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;&#8221;][vc_row_inner][vc_column_inner width=&#8221;1\/2&#8243;]<div class=\"centered-box\"><div class=\"gem-icon gem-icon-pack-material gem-icon-size-large  gem-icon-shape-square gem-simple-icon\"  style=\"opacity: 1;\"><div class=\"gem-icon-inner\" style=\"\"><a href=\"https:\/\/github.com\/KarchinLab\/open-cravat\/releases\/latest\" target=\"_blank\"><span class=\"gem-icon-half-1\" style=\"color: #1f83ff;\"><span class=\"back-angle\">&#xf5e4;<\/span><\/span><span class=\"gem-icon-half-2\" style=\"color: #1f83ff;\"><span class=\"back-angle\">&#xf5e4;<\/span><\/span><\/a><\/div><\/div><\/div>[\/vc_column_inner][vc_column_inner width=&#8221;1\/2&#8243;]<div class=\"centered-box\"><div class=\"gem-icon gem-icon-pack-material gem-icon-size-large  gem-icon-shape-square gem-simple-icon\"  style=\"opacity: 1;\"><div class=\"gem-icon-inner\" style=\"\"><a href=\"https:\/\/github.com\/KarchinLab\/open-cravat\/releases\/latest\" target=\"_blank\"><span class=\"gem-icon-half-1\" style=\"color: #000000;\"><span class=\"back-angle\">&#xf12a;<\/span><\/span><span class=\"gem-icon-half-2\" style=\"color: #000000;\"><span class=\"back-angle\">&#xf12a;<\/span><\/span><\/a><\/div><\/div><\/div>[\/vc_column_inner][\/vc_row_inner][vc_column_text css=&#8221;&#8221;]The OpenCRAVAT installer provides a user-friendly setup process, allowing users to easily install the software with a few clicks. It includes all necessary dependencies and offers an intuitive interface for variant annotation and analysis right out of the box.[\/vc_column_text][\/vc_column][\/vc_row][vc_row][vc_column width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;32948&#8243; img_size=&#8221;80&#215;80&#8243; onclick=&#8221;custom_link&#8221; img_link_target=&#8221;_blank&#8221; css=&#8221;&#8221; link=&#8221;https:\/\/anaconda.org\/bioconda\/open-cravat&#8221;][vc_custom_heading text=&#8221;BioConda&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1730401212221{margin-bottom: 0px !important;}&#8221; link=&#8221;url:https%3A%2F%2Fanaconda.org%2Fbioconda%2Fopen-cravat|target:_blank&#8221;][vc_column_text css=&#8221;.vc_custom_1729189806437{margin-bottom: 40px !important;}&#8221;]Bioconda is a cross-platform package manager and can be used as an alternative to pip when installing OpenCRAVAT.[\/vc_column_text][\/vc_column][vc_column width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;32949&#8243; img_size=&#8221;80&#215;80&#8243; onclick=&#8221;custom_link&#8221; img_link_target=&#8221;_blank&#8221; css=&#8221;&#8221; link=&#8221;https:\/\/hub.docker.com\/r\/karchinlab\/opencravat&#8221;][vc_custom_heading text=&#8221;Docker&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1730401196516{margin-bottom: 0px !important;}&#8221; link=&#8221;url:https%3A%2F%2Fhub.docker.com%2Fr%2Fkarchinlab%2Fopencravat|target:_blank&#8221;][vc_column_text css=&#8221;.vc_custom_1728658887350{margin-bottom: 40px !important;}&#8221;]OpenCRAVAT is available as a <a href=\"https:\/\/hub.docker.com\/r\/karchinlab\/opencravat\">Docker container<\/a> (with over 50,000 downloads!). All functionality is available in the container, including command-line annotation, high-throughput VCF annotation, and the OpenCRAVAT GUI. Designed for highly parallel annotation in the cloud and incorporation into large bioinformatics pipelines.[\/vc_column_text][\/vc_column][\/vc_row][vc_row][vc_column width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;33603&#8243; img_size=&#8221;80&#215;80&#8243; onclick=&#8221;custom_link&#8221; img_link_target=&#8221;_blank&#8221; css=&#8221;&#8221; link=&#8221;https:\/\/docs.opencravat.org\/en\/latest\/Cloud.html#microsoft-azure&#8221;][vc_custom_heading text=&#8221;Microsoft Azure&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1734377856455{margin-bottom: 0px !important;}&#8221; link=&#8221;url:https%3A%2F%2Fdocs.opencravat.org%2Fen%2Flatest%2FCloud.html%23microsoft-azure|target:_blank&#8221;][vc_column_text css=&#8221;.vc_custom_1734471708742{margin-bottom: 40px !important;}&#8221;]<\/p>\n<p data-pm-slice=\"1 1 []\">OpenCRAVAT can be easily set up to run in Azure, with modules installed from our store mirror on the Genomic Data Lake.\u00a0 See our instructions to quickly set up an AMI and use a custom script for importing your preferred annotators.<\/p>\n<p>[\/vc_column_text][\/vc_column][vc_column width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;33605&#8243; img_size=&#8221;80&#215;80&#8243; onclick=&#8221;custom_link&#8221; img_link_target=&#8221;_blank&#8221; css=&#8221;&#8221; link=&#8221;https:\/\/docs.opencravat.org\/en\/latest\/Cloud.html#amazon-web-services&#8221;][vc_custom_heading text=&#8221;AWS&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1734377890444{margin-bottom: 0px !important;}&#8221; link=&#8221;url:https%3A%2F%2Fdocs.opencravat.org%2Fen%2Flatest%2FCloud.html%23amazon-web-services|target:_blank&#8221;][vc_column_text css=&#8221;.vc_custom_1734470986404{margin-bottom: 40px !important;}&#8221;]An OpenCRAVAT CloudFormation Template is available to automatically pull an input file from S3, spin up an analysis AMI, and output the annotated results back to S3.[\/vc_column_text][\/vc_column][\/vc_row][vc_row full_width=&#8221;stretch_row&#8221; disable_element=&#8221;yes&#8221; css=&#8221;.vc_custom_1727992639282{margin-bottom: 0px !important;padding-top: 75px !important;padding-bottom: 75px !important;background-color: #f8f8f8 !important;}&#8221;][vc_column width=&#8221;1\/3&#8243;]<div class=\"thegem-te-heading thegem-custom-69e8420dee8eb2046\" ><h1 id=\"thegem-heading-69e8420dee88e\" class=\"thegem-heading\" style=\"text-align: left;\" ><span>Additional ways to run<\/span><\/h1><style type=\"text\/css\">#thegem-heading-69e8420dee88e {margin: 0;}#thegem-heading-69e8420dee88e a:hover, #thegem-heading-69e8420dee88e a:hover span.colored {color: var(--thegem-to-menu-level1-color-hover, #00BCD4) !important;}<\/style><\/div><style>@media screen and (max-width: 1023px) {.thegem-te-heading.thegem-custom-69e8420dee8eb2046{display: block!important;}}@media screen and (max-width: 767px) {.thegem-te-heading.thegem-custom-69e8420dee8eb2046{display: block!important;}}@media screen and (max-width: 1023px) {.thegem-te-heading.thegem-custom-69e8420dee8eb2046{position: relative !important;}}@media screen and (max-width: 767px) {.thegem-te-heading.thegem-custom-69e8420dee8eb2046{position: relative !important;}}<\/style>[\/vc_column][vc_column width=&#8221;2\/3&#8243;][vc_single_image image=&#8221;32949&#8243; img_size=&#8221;80&#215;80&#8243; css=&#8221;&#8221;][vc_custom_heading text=&#8221;Docker&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1726654194475{margin-bottom: 0px !important;}&#8221;][vc_column_text css=&#8221;.vc_custom_1726654234155{margin-bottom: 40px !important;}&#8221;]I am text block. Click edit button to change this text. Lorem ipsum dolor sit amet, consectetur adipiscing elit. Ut elit tellus, luctus nec ullamcorper mattis, pulvinar dapibus leo.[\/vc_column_text][vc_custom_heading text=&#8221;Other Cloud&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1726654205136{margin-bottom: 0px !important;}&#8221;][vc_column_text css=&#8221;.vc_custom_1726654240505{margin-bottom: 40px !important;}&#8221;]I am text block. Click edit button to change this text. Lorem ipsum dolor sit amet, consectetur adipiscing elit. Ut elit tellus, luctus nec ullamcorper mattis, pulvinar dapibus leo.[\/vc_column_text][vc_row_inner css=&#8221;.vc_custom_1726654432202{margin-top: 0px !important;margin-bottom: 0px !important;padding-top: 0px !important;padding-bottom: 0px !important;}&#8221;][vc_column_inner width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;32951&#8243; img_size=&#8221;80&#215;80&#8243; css=&#8221;&#8221;][vc_custom_heading text=&#8221;snakemake \/ bioconda \/ genepattern&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1726654213434{margin-bottom: 0px !important;}&#8221;][vc_column_text css=&#8221;.vc_custom_1726654246730{margin-bottom: 40px !important;}&#8221;]I am text block. Click edit button to change this text. Lorem ipsum dolor sit amet, consectetur adipiscing elit. Ut elit tellus, luctus nec ullamcorper mattis, pulvinar dapibus leo.[\/vc_column_text][\/vc_column_inner][vc_column_inner width=&#8221;1\/2&#8243;][vc_single_image image=&#8221;32948&#8243; img_size=&#8221;80&#215;80&#8243; css=&#8221;&#8221;][vc_custom_heading text=&#8221;snakemake \/ bioconda \/ genepattern&#8221; font_container=&#8221;tag:h3|text_align:left&#8221; use_theme_fonts=&#8221;yes&#8221; css=&#8221;.vc_custom_1726654213434{margin-bottom: 0px !important;}&#8221;][vc_column_text css=&#8221;.vc_custom_1726654246730{margin-bottom: 40px !important;}&#8221;]I am text block. Click edit button to change this text. Lorem ipsum dolor sit amet, consectetur adipiscing elit. 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