diff --git a/components/Nav/Navbar.vue b/components/Nav/Navbar.vue index 1bf062a010d4066cd8e1ba5646fa02c720b63261..3a013a447a077c4f8387dba0a4f9e46d3e777abc 100644 --- a/components/Nav/Navbar.vue +++ b/components/Nav/Navbar.vue @@ -18,7 +18,7 @@ const props = withDefaults(defineProps<Props>(), { density: "prominent", drawer: true, drawerEnabled: true, - title: "Knowledge database of all known anti-phage systems" + title: "Knowledge database of all known defense systems" }); const emit = defineEmits(['update:drawer']) function toggleTheme() { @@ -38,7 +38,7 @@ const sections = ref([ { id: "wiki", label: "Wiki", to: '/', }, { id: "refseq", label: "RefSeq DB", to: '/refseq/' }, { id: "structure", label: "Structures DB", to: '/structure/' }, - { id: "help", label: "Help", to: '/help/' }, + { id: "help", label: "Help", to: '/help/defensefinder' }, ]); diff --git a/content/1.help/1.DefenseFinder.md b/content/1.help/1.DefenseFinder.md index 69d670fddbbce762986ec7ce2a12243743f91c7d..f5fbf3361baba4f9d982ffa5cd6a86668199078d 100644 --- a/content/1.help/1.DefenseFinder.md +++ b/content/1.help/1.DefenseFinder.md @@ -17,9 +17,15 @@ Analyses are kept for 6 months, or with a maximum of 10 jobs. {max-width=750px} +In the Analyses panel, each past job is kept for 6 months. Next to the name of the input file (1) there is a rolling circle until the job finishes to run, which become a number. One can edit the job name (by default it's the file's name) by clicking on the small pen (2), or can delete a job (3). To visualize the results, one can click on Results (4) or on the job's name. + +{max-width=750px} + The result consists in 3 tables : -- Systems table : One system per line. On the column type, there is the name of the system, and one can click on it to be redirected to the corresponding wiki page. -- Genes table : One gene per line. Those are genes from the aforementioned system, with some addition information on the quality of the hit. The key between both table is `sys_id` -- HMMER table : One gene per line. Here it's all the genes hit by a hmm profile, even when the gene is not part of a defense system. +- Systems table : Shown by default. One system per line. On the column type, there is the name of the system, and one can click on it to be redirected to the corresponding wiki page (1). +- Genes table (2): One gene per line. Those are genes from the aforementioned system, with some addition information on the quality of the hit. The key between both table is `sys_id` +- HMMER table (3): One gene per line. Here it's all the genes hit by a hmm profile, even when the gene is not part of a defense system. + +{max-width=750px} diff --git a/public/help/analyses_interface.jpg b/public/help/analyses_interface.jpg new file mode 100644 index 0000000000000000000000000000000000000000..cc7e07e1a751c43dec3308d8a7f9673e71d58947 Binary files /dev/null and b/public/help/analyses_interface.jpg differ diff --git a/public/help/results_interface.jpg b/public/help/results_interface.jpg new file mode 100644 index 0000000000000000000000000000000000000000..8b30fca0c8a55b5408ebf2616b87aa995a9bfafa Binary files /dev/null and b/public/help/results_interface.jpg differ diff --git a/public/help/webservice_interface.jpg b/public/help/webservice_interface.jpg index bd6e0daa06b659855934d54a1484f96e965b9112..6df16c63b677fced3fd7e4d8ef736262173d6b71 100644 Binary files a/public/help/webservice_interface.jpg and b/public/help/webservice_interface.jpg differ