zebrafish
There are 39 repositories under zebrafish topic.
brainglobe/slicereg
A 2D-3D histological brain slice registration application for mouse, rat, zebrafish brains.
ElisabethKugler/ZFVascularQuantification
#ZVQ - Zebrafish Vascular Quantification - https://doi.org/10.1242/dev.199720
obophenotype/zebrafish-phenotype-ontology
A vocabulary for describing Zebrafish Phenotypes
jordan-g/Zebrafish-Tracking
Software for performing offline tracking of zebrafish larvae.
ElisabethKugler/GliaMorph
#GliaMorph - Toolkit to Process and Analyse Müller Glia Morphology
haesemeyer/GradientPrediction
Code for "Convergent Temperature Representations in Artificial and Biological Neural Networks"
BadenLab/Zebrafish-visual-space-model
Modelling the larval zebrafish field of view for illustration purposes
colbyford/zebrafish_mecp2_expression
Behavioral and Transcriptomic Analyses of mecp2 Function in Zebrafish
DavidStirling/QuantiFish
Zebrafish embryo fluorescence quantification
suzaku-x/Zebrafish-Brain-Visualization
A simple tool for zebrafish brain visualization.
obophenotype/zebrafish-phenotype-ontology-build
:fish: Zebrafish Phenotype Ontology: Build Tools (OBSOLETE)
carlescn/scRNAseq-tools
This is a set of bash wrapper scripts for STAR that simplify it's setup and use with a set of pre-defined parameters.
eteixido/Knime-workflows-FishInspector
This is a collection of Knime workflows developed for the analysis of the data obtained with the FishInspector software
giobbu/zebrafish
Zebrafish project for Champalimaud Research
kostasl/zebrafish_tracker
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.
minkechoi/tx_star-bPAC_brain
Early life GC exposed time-series mRNA-seq analysis and DNA methylome
nvladimus/ZebrafishFunctionalMaps_LinearRegression
Computing functional maps in zebrafish brain
Scott-Lab-QBI/Brainwide_auditory_processing
Set of functions, scripts and notebooks used in the brain-wide auditory processing project
sscholz-UFZ/EmbryoMotion
Software for analyis of zebrafish embryo sponaneous tail contractions and photomotor response
cenk-celik/kaliya_perumal_d_rerio
RNA-seq analysis for zebrafish with muscle injury
dgavr/Zebrafish_mappability
Different approaches to calculate mappability and GC-rich tracks for danio rerio genomes
emphazis-org/emphazis
Zebrafish tracking made simple.
Godino-Gimeno-A/aversive-learning
Obesity impairs cognitive function with no effects on anxiety-like behaviour in zebrafish
igarcia17/zebraFishTranscriptome
Shiny app that recopilates all gene expression of zebra fish and informs about the tissue and developmental stage in which the gene is expressed.
ltedgar-ed/flow_idealised_ISV_network
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)
rjstevick/loperamide-zebrafish-dysbiosis
Analysis of 16S rRNA and in vitro data from larval zebrafish with loperamide treatment
SinghB13/NemoTrainer
NemoTrainer
weygoldt/colorblind-directioncells
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.
Animadversio/Light-Sheet-Data-Processing-Script
Collection of scripts for running data processing of light sheet data
blachlylab/SABER
SABER: Selection of Amplicon Barcodes from Experimental Replicates
drguggiana/Guggiana_2021
Repository for the article "Distributed chromatic processing at the interface between retina and brain in the larval zebrafish", Guggiana et al. 2021, Curr. Bio.
LauLauThom/interactive-embedding-kidney
This repo contains the files to generate an interactive view of a feature set in the tensorflow embedding projector interface.
rjstevick/zebrafish-conv-mix9-models
Analysis of 16S rRNA and microscopy data from larval zebrafish
sielerjm/ZF-Diet_Infection
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.
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.