{"id":175,"date":"2019-08-16T17:43:13","date_gmt":"2019-08-16T21:43:13","guid":{"rendered":"http:\/\/people.clas.ufl.edu\/tstepien\/?page_id=175"},"modified":"2026-05-15T12:13:17","modified_gmt":"2026-05-15T16:13:17","slug":"software","status":"publish","type":"page","link":"https:\/\/people.clas.ufl.edu\/tstepien\/research\/software\/","title":{"rendered":"Software"},"content":{"rendered":"\n
\n

Software<\/h1>\n\n\n\n

Below are links to some of my code, primarily written in MATLAB, that I developed for numerical solutions of differential equations and image analysis in my research:<\/p>\n\n\n\n

Astrocyte Migration<\/h3>\n\n\n\n

<\/a> 1D simulations of astrocyte migration during embryonic development of the eye.<\/p>\n\n\n\n

ABC Analysis of Astrocyte Migration<\/h3>\n\n\n\n

<\/a> Numerical simulations of astrocyte migration and differentiation during embryonic development of the retina and its corresponding approximate Bayesian computation (ABC) analysis for parameter estimation and model reduction.<\/p>\n\n\n\n

Linearly Perturbed May-Leonard<\/h3>\n\n\n\n

<\/a> Numerical simulations and analysis of the May-Leonard three-species competition model with an added linear perturbation term.<\/p>\n\n\n\n

Moth Mating<\/h3>\n\n\n\n

<\/a> Computational models of moth navigation and mating.<\/p>\n\n\n\n

Similarity Solutions<\/h3>\n\n\n\n

<\/a> Similarity solutions of a generalized heat equation arising in a model of cell migration.<\/p>\n\n\n\n

Single Layer Cell Migration in Spatial Coordinates<\/h3>\n\n\n\n

<\/a> Numerical simulation of the collective migration of cells and tissues.<\/p>\n\n\n\n

Strain Mapping<\/h3>\n\n\n\n

<\/a> To calculate the deformation of a tissue via estimates of the engineering\/Cauchy strains \u03b5_{xx}, \u03b5_{yy}, \u03b5_{xy}, and \u03b5_{yx}, and the displacement gradient \u2207u between two images in a time-lapse sequence.<\/p>\n\n\n\n

<\/div>\n\n\n\n

Lab Group Software<\/h2>\n\n\n\n

Below are links to code that students in my lab group developed:<\/p>\n\n\n\n

Glioma-T Cell-MDSC Simulations<\/h3>\n\n\n\n

Lead developer:<\/i> Hannah Anderson
<\/a> Simulations of a mathematical model of interactions between glioma cells, T cells, and myeloid-derived suppressor cells (MDSCs)<\/p>\n\n\n\n

Glioma-T Cell-MDSC Simulations with Treatment<\/h3>\n\n\n\n

Lead developer:<\/i> Hannah Anderson
<\/a> Simulations of a mathematical model of interactions between glioma cells, T cells, and myeloid-derived suppressor cells (MDSCs) with treatment.<\/p>\n\n\n\n

MidgePy<\/h3>\n\n\n\n

Lead developer:<\/i> Shane Gladson
\n<\/a> An agent-based model of biting midge dynamics to understand Bluetongue outbreaks<\/p>\n<\/div><\/div><\/div><\/section>\n","protected":false},"excerpt":{"rendered":"","protected":false},"author":1034,"featured_media":0,"parent":22,"menu_order":0,"comment_status":"closed","ping_status":"closed","template":"","meta":{"_acf_changed":false,"featured_post":"","footnotes":"","_links_to":"","_links_to_target":""},"class_list":["post-175","page","type-page","status-publish","hentry"],"acf":[],"_links":{"self":[{"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/pages\/175","targetHints":{"allow":["GET"]}}],"collection":[{"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/pages"}],"about":[{"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/types\/page"}],"author":[{"embeddable":true,"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/users\/1034"}],"replies":[{"embeddable":true,"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/comments?post=175"}],"version-history":[{"count":10,"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/pages\/175\/revisions"}],"predecessor-version":[{"id":1134,"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/pages\/175\/revisions\/1134"}],"up":[{"embeddable":true,"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/pages\/22"}],"wp:attachment":[{"href":"https:\/\/people.clas.ufl.edu\/tstepien\/wp-json\/wp\/v2\/media?parent=175"}],"curies":[{"name":"wp","href":"https:\/\/api.w.org\/{rel}","templated":true}]}}