There are 0 repository under zebrafish topic.
A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.
#ZVQ - Zebrafish Vascular Quantification - https://doi.org/10.1242/dev.199720
A vocabulary for describing Zebrafish Phenotypes
Software for performing offline tracking of zebrafish larvae.
#GliaMorph - Toolkit to Process and Analyse MĂĽller Glia Morphology
Code for "Convergent Temperature Representations in Artificial and Biological Neural Networks"
Modelling the larval zebrafish field of view for illustration purposes
Behavioral and Transcriptomic Analyses of mecp2 Function in Zebrafish
Zebrafish embryo fluorescence quantification
A simple tool for zebrafish brain visualization.
:fish: Zebrafish Phenotype Ontology: Build Tools (OBSOLETE)
This is a set of bash wrapper scripts for STAR that simplify it's setup and use with a set of pre-defined parameters.
This is a collection of Knime workflows developed for the analysis of the data obtained with the FishInspector software
Behaviour analysis tracking and data analysis software using machine vision to track larval zebrafish behaviour. Software is built using C++,QT and OpenCV, while R scripts are used for data analysis and figure generation.
Early life GC exposed time-series mRNA-seq analysis and DNA methylome
Computing functional maps in zebrafish brain
Set of functions, scripts and notebooks used in the brain-wide auditory processing project
Software for analyis of zebrafish embryo sponaneous tail contractions and photomotor response
RNA-seq analysis for zebrafish with muscle injury
Different approaches to calculate mappability and GC-rich tracks for danio rerio genomes
Zebrafish tracking made simple.
Obesity impairs cognitive function with no effects on anxiety-like behaviour in zebrafish
Shiny app that recopilates all gene expression of zebra fish and informs about the tissue and developmental stage in which the gene is expressed.
Network flow model of the zebrafish trunk vasculature (Control and Wasp Mutant data included) as part of the study presented by Rosa et. al. 2022 (https://journals.biologists.com/dev/article/149/3/dev200195/274169)
Analysis of 16S rRNA and in vitro data from larval zebrafish with loperamide treatment
A lab rotation with the systems neuroscience lab, University of Tuebingen, where we tested whether color contrast contributed to encoding motion in direction selective cells of the zebrafish optic tectum.
Collection of scripts for running data processing of light sheet data
SABER: Selection of Amplicon Barcodes from Experimental Replicates
Repository for the article "Distributed chromatic processing at the interface between retina and brain in the larval zebrafish", Guggiana et al. 2021, Curr. Bio.
This repo contains the files to generate an interactive view of a feature set in the tensorflow embedding projector interface.
Analysis of 16S rRNA and microscopy data from larval zebrafish
Code used for analysis in the publication: Disentangling the link between zebrafish diet, gut microbiome succession, and Mycobacterium chelonae infection. Don't hesitate to reach out with any questions.
Independent project I undertook to perform a full ChIP-Seq analysis of the transcription factor Nanog in Zebrafish embryos.