developmental-biology
There are 35 repositories under developmental-biology topic.
Chaste/Chaste
Chaste - Cancer Heart And Soft Tissue Environment - main public repository.
germannp/yalla
Spheroid models of morphogenesis for the GPU.
ComplexOrganizationOfLivingMatter/Epithelia3D
"Scutoids are a geometrical solution to three-dimensional packing of epithelia" - https://www.nature.com/articles/s41467-018-05376-1.
alihashmiii/3D-Vertex-Model
vertex model implementation to simulate biological tissue in 3D
alihashmiii/2D-vertex-model
vertex model for simulating two-dimensional epithelial tissues
obophenotype/human-developmental-anatomy-ontology
Ontology of human developmental anatomy
ndalchau/turing-model-reduction
Matlab scripts to recreate figures of the JR Soc Interface article "Model reduction enables Turing instability analysis of large reaction-diffusion models"
vertesy/C.elegans.Spatial.Transcriptomics
Analysis scripts for the Ebbing et manuscript: "Spatially-resolved transcriptomics in C. elegans identifies sex-specific differences in gene expression patterns"
hoffmannjordan/Insect-Development-Model
Python code to model the syncytial development of a cricket in 3D. Additional Mathematica Code for rendering mesh2 objects in povray.
vertesy/X-Reactivation
Analysis scripts for the Vertesy 2018 paper: "Parental haplotype specific single-cell transcriptomics reveal incomplete epigenetic reprogramming in human female germ cells"
alihashmiii/cellular-potts-model
a mathematica implementation of the cellular-potts model
brickmanlab/proks-salehin-et-al
Deep Learning Based Models for Preimplantation Mouse and Human Development
bruvellu/terebratalia-wnts
Expression of Wnt signaling components in the brachiopod Terebratalia transversa
ComplexOrganizationOfLivingMatter/Epigraph
EpiGraph is a Fiji plugin that combines computational geometry and graph theory to measure the degree of arrangement in any computational or natural tessellation.
ComplexOrganizationOfLivingMatter/Fiji-plugins
GitHub Repository which is used as a Maven Repository
Flysta3D/multi_omics_atlas
Custom codes for Flysta3D paper.
kaszalab/xenopus-protein-localization
Analysis of junctional protein localization patterns in epithelial tissues
Mainakdeb/elegant-embryos
deep-learning for metadata extraction from the C. elegans embryo
SilasBoyeNissen/Theoretical-tool-bridging-cell-polarities-with-development-of-robust-morphologies
"Theoretical tool bridging cell polarities with development of robust morphologies" published in eLife (2018)
airosado/BIOS_FundamentalsClasses-UChicago
UChicago Molecules to Organisms Fundamentals Sequence R Code: Ecology, Quantitative Bio, Genetics, Physiology, Developmental Bio
antoineruzette/goo_gallery
Goo is the Blender library for simulating biological cells, tissues and embryos in 3D.
asifzubair/BayesianModelSelection
Bayesian model selection for the Drosophila gap gene network
cancerbits/cancerbits.github.io
Lab website.
catohaste/neighbourhood-streak
Implementation of two models which study how positional information is encoded and interpreted in the developing embryo.
ComplexOrganizationOfLivingMatter/LimeSeg_Pipeline
"A quantitative principle to understand 3D cellular connectivity in epithelial tubes" Gomez-Galvez et al
mkondakis/DRIN
R package that uses rstan capabilities to sample using `HMC' and inference for developmental rate dynamics of species in ecology
mragsac/PhD-Dissertation
Files used to generate Michelle Franc Ragsac's Ph.D. Dissertation
Pegayus/Gene-Expression-Analysis
Comprehensive analysis of differential gene expression using Bayesian statistics and advanced statistical modeling techniques. The project includes scripts, data, figures, and analysis results.
sEMTor/sEMTor.github.io
sEMTor is an online simulation for epithelial-mesenchymal transitions (EMT)
nickwawee/MSU_Ad_Hoc_Analyses
This repo contains code and presentations used for ad-hoc analyses regarding liver cell toxicology and development. It also contains analyses on human and mice immune cells.
YogiOnBioinformatics/ChIP-Seq-Analysis-Nanog-and-H3K27Ac
Independent project I undertook to perform a full ChIP-Seq analysis of the transcription factor Nanog in Zebrafish embryos.