{"id":91,"date":"2017-05-30T09:07:29","date_gmt":"2017-05-30T09:07:29","guid":{"rendered":"http:\/\/sites.unimi.it\/camilloni\/?page_id=91"},"modified":"2023-10-25T16:06:05","modified_gmt":"2023-10-25T14:06:05","slug":"softwaretools","status":"publish","type":"page","link":"https:\/\/compsb.unimi.it\/index.php\/softwaretools\/","title":{"rendered":"Resources"},"content":{"rendered":"\n<p><strong>These are repositories, softwares and web servers we contributed to develop:<\/strong><\/p>\n\n\n\n<p><a rel=\"noopener noreferrer\" href=\"https:\/\/github.com\/carlocamilloni\/labtools\" target=\"_blank\">LabTools<\/a>: tools from and for our daily work.<\/p>\n\n\n\n<p><a rel=\"noreferrer noopener\" href=\"https:\/\/github.com\/multi-ego\/multi-eGO\" target=\"_blank\">Multi-<em>e<\/em>GO<\/a>: tools and parameters to setup multi-eGO simulations using one or more reference MD simulation.<\/p>\n\n\n\n<p><a href=\"http:\/\/www.plumed.org\">PLUMED<\/a>:&nbsp;an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular dynamics and quantum chemistry engines (<a href=\"https:\/\/github.com\/plumed\/plumed2\">GitHub<\/a>).<\/p>\n\n\n\n<p><a href=\"http:\/\/www.plumed-nest.org\" target=\"_blank\" rel=\"noopener noreferrer\">PLUMED-NEST<\/a>: is the public repository of the PLUMED consortium. It provides all the data needed to reproduce the results of a PLUMED-enhanced molecular dynamics simulation (or analysis) contained in a published paper.<\/p>\n\n\n\n<p><a href=\"http:\/\/www-mvsoftware.ch.cam.ac.uk\">\u03b42D<\/a>:&nbsp;A method of calculating secondary structures populations of proteins from their chemical shifts (<a href=\"https:\/\/github.com\/carlocamilloni\/d2D\" target=\"_blank\" rel=\"noopener noreferrer\">GitHub<\/a>).<\/p>\n\n\n\n<p><a href=\"http:\/\/www-mvsoftware.ch.cam.ac.uk\">s2D<\/a>:&nbsp;A method of predicting protein secondary structure populations from the amino acid sequence. &nbsp;This predicts simultaneously structure and intrinsic disorder. It includes polyproline-II&nbsp;prediction.<\/p>\n","protected":false},"excerpt":{"rendered":"<p>These are repositories, softwares and web servers we contributed to develop: LabTools: tools from and for our daily work. Multi-eGO: tools and parameters to setup multi-eGO simulations using one or more reference MD simulation. PLUMED:&nbsp;an open source library for free energy calculations in molecular systems which works together with some of the most popular molecular [&hellip;]<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"class_list":["post-91","page","type-page","status-publish","hentry"],"_links":{"self":[{"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/pages\/91","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/comments?post=91"}],"version-history":[{"count":20,"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/pages\/91\/revisions"}],"predecessor-version":[{"id":1370,"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/pages\/91\/revisions\/1370"}],"wp:attachment":[{"href":"https:\/\/compsb.unimi.it\/index.php\/wp-json\/wp\/v2\/media?parent=91"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}