{"id":170,"date":"2013-03-08T14:24:37","date_gmt":"2013-03-08T13:24:37","guid":{"rendered":"https:\/\/protsci-us2b.univ-nantes.fr\/FP2B\/?page_id=170"},"modified":"2013-09-24T19:03:51","modified_gmt":"2013-09-24T17:03:51","slug":"fp2b-help","status":"publish","type":"page","link":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/?page_id=170","title":{"rendered":"FoRSA help"},"content":{"rendered":"<h2>Input:<\/h2>\n<p>Enter an amino acid sequence in fasta format in the text area. The length of input sequence must be between 30 to 1,500 amino acids.<\/br> <strong>OR<\/strong> upload an amino acid sequence in fasta format.<br \/>\n<img data-recalc-dims=\"1\" decoding=\"async\" alt=\"Inputs\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/forsa\/wp-content\/uploads\/2013\/03\/inputs_fp2b.png?w=1900&#038;ssl=1\" class=\"aligncenter\" style=\"border:solid 1px #CCCCCC;\"\/><\/p>\n<p>You can choose different options :<\/p>\n<ul>\n<li>The length threshold (we suggest 50% for a global alignment and 20% for a local alignment)<\/li>\n<li>The gap penalty (we suggest -4 for a global alignment and -20 or -15 for a local alignment)<\/li>\n<li>The type of alignment<\/li>\n<li>The fold library you want to use<\/li>\n<li>The ranks value is for number of top hits to be displayed on the result page<\/li>\n<\/ul>\n<p><img data-recalc-dims=\"1\" decoding=\"async\" alt=\"Options\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/forsa\/wp-content\/uploads\/2013\/03\/options_fp2b.png?w=1900&#038;ssl=1\" class=\"aligncenter\" style=\"border:solid 1px #CCCCCC;\"\/><\/p>\n<p>If you have already run a job, you can see your results by entering your JOBID in the text area.<br \/>\n<img data-recalc-dims=\"1\" decoding=\"async\" alt=\"Options\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/forsa\/wp-content\/uploads\/2013\/03\/existingresults_fp2b.png?w=1900&#038;ssl=1\" class=\"aligncenter\" style=\"border:solid 1px #CCCCCC;\"\/><\/p>\n<h2>Result page:<\/h2>\n<p>The results are delivered as followed (you can download this page as a text file from the Download button):<br \/>\n<img data-recalc-dims=\"1\" decoding=\"async\" alt=\"Options\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/forsa\/wp-content\/uploads\/2013\/03\/results_global.png?w=1900&#038;ssl=1\" class=\"aligncenter\" style=\"border:solid 1px #CCCCCC;\"\/><\/p>\n<p>Different links and informations provided in the result page are described on the following figure:<br \/>\n<img data-recalc-dims=\"1\" decoding=\"async\" alt=\"Options\" src=\"https:\/\/i0.wp.com\/protsci-us2b.univ-nantes.fr\/forsa\/wp-content\/uploads\/2013\/04\/Capture-d%E2%80%99%C3%A9cran-2013-04-26-%C3%A0-10.30.46.png?w=1900&#038;ssl=1\" class=\"aligncenter\" style=\"border:solid 1px #CCCCCC;\"\/><\/p>\n<p>Finally, below the table, you can see the detail of every alignment.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Input: Enter an amino acid sequence in fasta format in the text area. The length of input sequence must be between 30 to 1,500 amino acids. OR upload an amino acid sequence in fasta format. You can choose different options : The length threshold (we suggest 50% for a global alignment and 20% for a [&hellip;]<\/p>\n","protected":false},"author":2,"featured_media":0,"parent":16,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"full-width-page.php","meta":{"footnotes":""},"class_list":["post-170","page","type-page","status-publish","hentry"],"blocksy_meta":[],"jetpack_sharing_enabled":true,"_links":{"self":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/170","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/users\/2"}],"replies":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=%2Fwp%2Fv2%2Fcomments&post=170"}],"version-history":[{"count":13,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/170\/revisions"}],"predecessor-version":[{"id":224,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/170\/revisions\/224"}],"up":[{"embeddable":true,"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=\/wp\/v2\/pages\/16"}],"wp:attachment":[{"href":"https:\/\/protsci-us2b.univ-nantes.fr\/forsa\/index.php?rest_route=%2Fwp%2Fv2%2Fmedia&parent=170"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}