Marta Vidal-Garcia's repositories
morpho.tools.GM
A set of functions to help with geometric morphometric analyses of 3D data
mesh_process
An R tool for batch-processing of meshes and landmark files for shape analyses
BHlab_exercise1
A short exercise to clone this repo and modify the file locally
DeepLearningBasedSegmentationForBiologists
3-day workshop to teach biologists how to train and process deep convolutional neural networks for image segmentation through a comprehensive image analysis pipeline for immune profiling of 2D multiplexed images
ShapeRotator
an R tool for standardised rigid rotations of articulated Three-Dimensional structures with application for geometric morphometrics
VoxelStats
A MATLAB package for multi-modal voxel-wise brain image analysis
VTK
Mirror of Visualization Toolkit repository
jumping-toads
This repository contains the R code for the paper: Hudson CM, Vidal-García M, Murray TG, Shine R. 2020 The accelerating anuran: evolution of locomotor performance in cane toads ( Rhinella marina, Bufonidae) at an invasion front. Proc. R. Soc. B 20201964. http://dx.doi.org/10.1098/rspb.2020.1964
Oculudentavis_retrodeformation
Retrodeformation code for the paper Bolet, A., Stanley, E., Daza, J.D., Arias, J.S., Čerňanský, A., Vidal-García, M., Bauer, A.M., Bevitt, J.J., Peretti, A., Evans, S.E., (2021) Unusual morphology in the mid-Cretaceous lizard Oculudentavis. Current Biology. https://bit.ly/3eaZcVL
mantis-evol
This repository contains the R code, data, and figures for the paper Vidal-García, M., O'Hanlon, J.C., Svenson, G.J, Umbers, K.D.L. (in press) The evolution of defensive displays in praying mantises. Proceedings of the Royal Society B
Landmarking
Repository for registration-based landmarking and shape optimization.
Python_Intro_ANU
python notebooks and example data for bioinformatics-bash-python course run for RSB at ANU
Ubuntu-Rstudio-server-setup
Here's a bash script that'll get Rstudio server (preview 1.3) setup with Microsoft open R 3.5 under the hood.
3D_GM_misc
Miscellaneous scripts to deal with 3D landmark data and rendered volumes
ggnetworx
phylogenetic networks using ggplot2 and ggtree
2019OrganizationalDocs
notes and documents for 2019 Workshop
2019Workshop
Files related to 2019 workshop
ggtree
:christmas_tree:Visualization and annotation of phylogenetic trees
r-raster-vector-geospatial
Data Carpentry: Introduction to Geospatial Raster and Vector Data with R
phangorn
Phylogenetic analysis in R
drishti
Drishti
raukr
Jenny Bryan's instruction at RaukR: Advanced R for Bioinformatics Summer School
practical-machine-learning-with-python
Master the essential skills needed to recognize and solve complex real-world problems with Machine Learning and Deep Learning by leveraging the highly popular Python Machine Learning Eco-system.