{"id":4223,"date":"2019-09-24T14:52:40","date_gmt":"2019-09-24T12:52:40","guid":{"rendered":"https:\/\/sfbd.fr\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/"},"modified":"2019-12-24T10:09:20","modified_gmt":"2019-12-24T09:09:20","slug":"3d-time-live-imaging-data-analyst-and-software-developer","status":"publish","type":"post","link":"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/","title":{"rendered":"3D + time live imaging data analyst and software developer"},"content":{"rendered":"\n

Article en anglais<\/em> <\/pre>\n
The Tunicate embryology Research Team<\/a> and the MRI core imaging facility <\/a>in Montpellier, France, have an opening for a computer scientist in charge of the analysis of 3D + time fluorescence imaging data of living embryos of a class of marine invertebrates, the ascidians. The contract is for up to 4 years.<\/p><\/p>\n\n\n\n
The selected candidate will use and further develop a tool for the automatic segmentation of fluorescence imaging data obtained using a light sheet microscope, ASTEC (Automated Segmentation and Tracking of Embryonic Cells) developed by the team and its collaborators (for an example output of ASTEC, watch the Video showing a segmented Phallusia<\/em> embryo).<\/a><\/p>\n\n\n\n
Missions:<\/strong><\/p>\n\n\n\n
\u2013 Use ASTEC to segment and track the imaging data collected by the team\u2019s biologists. Perform statistical analyses of embryonic morphology (reproducibility between individuals and between species, phenotyping,\u2026).<\/p>\n\n\n\n
\u2013 Develop ASTEC\u2019s ergonomics and man-machine interface to make the system as user-friendly as possible for biologist users. Participate in its deployment on the MRI imaging facility.<\/p>\n\n\n\n
\u2013 Train biologist users in the use of the tool and set up and maintain a website presenting the system and its documentation to the scientific community.<\/p>\n\n\n\n
\u2013 Improve ASTEC\u2019s performance after finding its limits and the most important imaging parameters for the successful segmentation and tracking of cells.<\/p>\n\n\n\n
Context:<\/strong><\/p>\n\n\n\n
The work will be carried out mainly within the tunicate development research team in Montpellier, Southern France. Frequent interactions will take place with the core facility\u2019s engineers and with the computer scientists developing the core of ASTEC in the Morpheme<\/a>, ICAR<\/a> and MOSAIC<\/a> teams.<\/p>\n\n\n\n
Prerequisites:<\/strong><\/p>\n\n\n\n
\u2013 Undergraduate studies level in computer science, bioinformatics, applied mathematics, image analysis or physics
\u2013 Good knowledge of Python
\u2013 Knowledge in statistics
\u2013 Interest in biological image analysis
\u2013 Some training in biology would be a plus, but is not required
\u2013 A sufficient level in written \/ spoken English to interact daily with non-French speaking scientists. French knowledge not required<\/p>\n\n\n\n
Contact:<\/strong><\/p>\n\n\n\n
Apply through the CNRS employment website<\/a>. An informal contact can be established beforehand with the scientist in charge of the project, Patrick Lemaire, CRBM, patrick.lemaire@crbm.cnrs.fr<\/p>\n","protected":false},"excerpt":{"rendered":"
A position is open for a data scientist in charge of the analysis of 3D + time fluorescence imaging data of living ascidian embryos. The contract is for up to 4 years.<\/p>\n","protected":false},"author":4,"featured_media":3457,"comment_status":"closed","ping_status":"open","sticky":false,"template":"","format":"standard","meta":{"footnotes":""},"categories":[93],"tags":[94],"yoast_head":"\n3D + time live imaging data analyst and software developer - SFBD<\/title>\n<meta name=\"robots\" content=\"index, follow, max-snippet:-1, max-image-preview:large, max-video-preview:-1\" \/>\n<link rel=\"canonical\" href=\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/\" \/>\n<meta property=\"og:locale\" content=\"en_US\" \/>\n<meta property=\"og:type\" content=\"article\" \/>\n<meta property=\"og:title\" content=\"3D + time live imaging data analyst and software developer - SFBD\" \/>\n<meta property=\"og:description\" content=\"A position is open for a data scientist in charge of the analysis of 3D + time fluorescence imaging data of living ascidian embryos. The contract is for up to 4 years.\" \/>\n<meta property=\"og:url\" content=\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/\" \/>\n<meta property=\"og:site_name\" content=\"SFBD\" \/>\n<meta property=\"article:published_time\" content=\"2019-09-24T12:52:40+00:00\" \/>\n<meta property=\"article:modified_time\" content=\"2019-12-24T09:09:20+00:00\" \/>\n<meta property=\"og:image\" content=\"https:\/\/sfbd.fr\/wp-content\/uploads\/2019\/09\/3D-software-developer.jpg\" \/>\n\t<meta property=\"og:image:width\" content=\"775\" \/>\n\t<meta property=\"og:image:height\" content=\"775\" \/>\n\t<meta property=\"og:image:type\" content=\"image\/jpeg\" \/>\n<meta name=\"twitter:card\" content=\"summary_large_image\" \/>\n<meta name=\"twitter:creator\" content=\"@sfbd_biodev\" \/>\n<meta name=\"twitter:site\" content=\"@sfbd_biodev\" \/>\n<meta name=\"twitter:label1\" content=\"Written by\" \/>\n\t<meta name=\"twitter:data1\" content=\"Patrick Lemaire\" \/>\n\t<meta name=\"twitter:label2\" content=\"Est. reading time\" \/>\n\t<meta name=\"twitter:data2\" content=\"2 minutes\" \/>\n<script type=\"application\/ld+json\" class=\"yoast-schema-graph\">{\"@context\":\"https:\/\/schema.org\",\"@graph\":[{\"@type\":\"Organization\",\"@id\":\"https:\/\/sfbd.fr\/en\/#organization\",\"name\":\"Soci\u00e9t\u00e9 Fran\u00e7aise de Biologie du D\u00e9veloppement\",\"url\":\"https:\/\/sfbd.fr\/en\/\",\"sameAs\":[\"https:\/\/twitter.com\/sfbd_biodev\"],\"logo\":{\"@type\":\"ImageObject\",\"@id\":\"https:\/\/sfbd.fr\/en\/#logo\",\"inLanguage\":\"en-US\",\"url\":\"https:\/\/sfbd.fr\/wp-content\/uploads\/2019\/11\/Favicon.jpg\",\"contentUrl\":\"https:\/\/sfbd.fr\/wp-content\/uploads\/2019\/11\/Favicon.jpg\",\"width\":1324,\"height\":1324,\"caption\":\"Soci\u00e9t\u00e9 Fran\u00e7aise de Biologie du D\u00e9veloppement\"},\"image\":{\"@id\":\"https:\/\/sfbd.fr\/en\/#logo\"}},{\"@type\":\"WebSite\",\"@id\":\"https:\/\/sfbd.fr\/en\/#website\",\"url\":\"https:\/\/sfbd.fr\/en\/\",\"name\":\"Soci\u00e9t\u00e9 Fran\u00e7aise de Biologie du D\u00e9veloppement\",\"description\":\"\",\"publisher\":{\"@id\":\"https:\/\/sfbd.fr\/en\/#organization\"},\"potentialAction\":[{\"@type\":\"SearchAction\",\"target\":{\"@type\":\"EntryPoint\",\"urlTemplate\":\"https:\/\/sfbd.fr\/en\/?s={search_term_string}\"},\"query-input\":\"required name=search_term_string\"}],\"inLanguage\":\"en-US\"},{\"@type\":\"ImageObject\",\"@id\":\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/#primaryimage\",\"inLanguage\":\"en-US\",\"url\":\"https:\/\/sfbd.fr\/wp-content\/uploads\/2019\/09\/3D-software-developer.jpg\",\"contentUrl\":\"https:\/\/sfbd.fr\/wp-content\/uploads\/2019\/09\/3D-software-developer.jpg\",\"width\":775,\"height\":775},{\"@type\":\"WebPage\",\"@id\":\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/#webpage\",\"url\":\"https:\/\/sfbd.fr\/en\/2019\/09\/24\/3d-time-live-imaging-data-analyst-and-software-developer\/\",\"name\":\"3D + time live imaging data analyst and software developer - 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