{"id":31,"date":"2020-11-18T20:01:43","date_gmt":"2020-11-18T20:01:43","guid":{"rendered":"http:\/\/localhost\/testsite\/?page_id=31"},"modified":"2020-12-18T18:30:55","modified_gmt":"2020-12-18T18:30:55","slug":"github","status":"publish","type":"page","link":"https:\/\/sysbiosig.org\/index.php\/github\/","title":{"rendered":"Software"},"content":{"rendered":"\n<p><strong><a href=\"https:\/\/github.com\/sysbiosig\/FRA\" target=\"_blank\" rel=\"noreferrer noopener\">Fractional Response Analysis (FRA) R -package<\/a><\/strong>: deconvolution of multivariate cellular responses into fractions of cells with distinct responses (<strong><a href=\"https:\/\/www.biorxiv.org\/content\/10.1101\/2020.12.08.413468v1\" target=\"_blank\" rel=\"noreferrer noopener\">paper<\/a><\/strong><a rel=\"noreferrer noopener\" target=\"_blank\" href=\"https:\/\/twitter.com\/search?q=#RenyiInformation)\">)<\/a>.    <\/p>\n\n\n\n<div style=\"height:20px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p><strong><a rel=\"noreferrer noopener\" href=\"https:\/\/github.com\/sysbiosig\/SLEMI\" target=\"_blank\">Statistical Learning Estimation of Mutual Information (SLEMI) R-package:<\/a> <\/strong>information-theoretic analysis of multivariate single-cell responses, which includes an estimation of information measures and discrimination probabilities (<strong><a rel=\"noreferrer noopener\" href=\"https:\/\/journals.plos.org\/ploscompbiol\/article?rev=2&amp;id=10.1371\/journal.pcbi.1007132\" target=\"_blank\">paper<\/a><\/strong>).  <\/p>\n\n\n\n<div style=\"height:20px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p><strong><a rel=\"noreferrer noopener\" href=\"https:\/\/github.com\/sysbiosig\/Jetka_et_al_Nature_communications_2018\" target=\"_blank\">Matlab code<\/a><\/strong> used for computations in our <a rel=\"noreferrer noopener\" href=\"An information-theoretic framework for deciphering pleiotropic and noisy biochemical signaling\" target=\"_blank\"><strong>pape<\/strong>r:<em> <strong>An information-theoretic framework for deciphering pleiotropic and noisy biochemical signaling<\/strong><\/em><\/a><a href=\"paper: An information-theoretic framework for deciphering pleiotropic and noisy biochemical signaling,\">,<\/a> Nat. Commun. 2018.<\/p>\n\n\n\n<div style=\"height:20px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p><a rel=\"noreferrer noopener\" href=\"https:\/\/github.com\/stork119\/ClusteringIdentifiability\" target=\"_blank\"><strong>Model parameter clustering<\/strong>:<\/a><a href=\"https:\/\/github.com\/stork119\/ClusteringIdentifiability\"> <\/a>clustering of model parameters based on similarity of their impact on model variable<a href=\"https:\/\/github.com\/stork119\/ClusteringIdentifiability\"> (<\/a><strong><a rel=\"noreferrer noopener\" href=\"https:\/\/bmcsystbiol.biomedcentral.com\/articles\/10.1186\/s12918-015-0205-8\" data-type=\"URL\" data-id=\"https:\/\/bmcsystbiol.biomedcentral.com\/articles\/10.1186\/s12918-015-0205-8\" target=\"_blank\">paper<\/a><\/strong><a href=\"https:\/\/github.com\/stork119\/ClusteringIdentifiability\">). <\/a><\/p>\n\n\n\n<div style=\"height:20px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p><strong><a href=\"https:\/\/sourceforge.net\/projects\/stochdecomp\/\">StochDecomp Matlab package<\/a><\/strong>: variance decomposition of stochastic chemical kinetics models into contributions resulting from individual reactions (<a rel=\"noreferrer noopener\" href=\"https:\/\/academic.oup.com\/bioinformatics\/article\/30\/1\/137\/238151\" target=\"_blank\"><strong>paper<\/strong><\/a>).<\/p>\n\n\n\n<div style=\"height:20px\" aria-hidden=\"true\" class=\"wp-block-spacer\"><\/div>\n\n\n\n<p><strong><a href=\"http:\/\/www.theosysbio.bio.ic.ac.uk\/resources\/stns\/\" target=\"_blank\" rel=\"noreferrer noopener\">StochSens Matlab package:<\/a><\/strong> sensitivity analysis and Fisher information computation for  stochastic models of chemical kinetics (<strong>pape<\/strong>r).<\/p>\n","protected":false},"excerpt":{"rendered":"<p>Fractional Response Analysis (FRA) R -package: deconvolution of multivariate cellular responses into fractions of cells with distinct responses (paper). Statistical&hellip;<\/p>\n","protected":false},"author":1,"featured_media":0,"parent":0,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"footnotes":""},"_links":{"self":[{"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/pages\/31"}],"collection":[{"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/users\/1"}],"replies":[{"embeddable":true,"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/comments?post=31"}],"version-history":[{"count":12,"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/pages\/31\/revisions"}],"predecessor-version":[{"id":320,"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/pages\/31\/revisions\/320"}],"wp:attachment":[{"href":"https:\/\/sysbiosig.org\/index.php\/wp-json\/wp\/v2\/media?parent=31"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}