xies
Cell & computational biologist. Thinks about how cell size is controlled.
@Stanford UniversityStanford, CA
Pinned Repositories
academicpages.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
EDGE
Embryo Development Geometry Explorer (EDGE) is a program written by Michael Gelbart at Princeton University used to analyze data sets of developing embryos from confocal microscopes.
EDGE_interface
Additional code for interacting with data output by EDGE
image_analysis
Image processing and analysis tools
mouse_skin_size_control
play_this
Flask micro-app for making a playlist
pulse_finding
Package for finding myosin pulses quantified from live images. Also tools to analyse pulses.
python_utils
Python utility library
vertex_model
vertex model
xies_utils
Python utility functions
xies's Repositories
xies/mouse_skin_size_control
xies/pulse_finding
Package for finding myosin pulses quantified from live images. Also tools to analyse pulses.
xies/xies_utils
Python utility functions
xies/academicpages.github.io
Github Pages template for academic personal websites, forked from mmistakes/minimal-mistakes
xies/accutrack
xies/aics-ml-segmentation
xies/Correct_3D_Drift
xies/crispri_hamming_distance
xies/cycd_target_search
xies/DeepCell
xies/deepcell-tf
Deep Learning for Single Cell Analysis
xies/dmorgens-castle
xies/FACS
FloJo analysis
xies/firthlogist
A Python implementation of Firth Logistic Regression
xies/GUI
GUIs utilities
xies/hESC_iamges
xies/hESC_images
xies/ilastik
ilastik-shell, applets, and workflows to string them together.
xies/imagej
:sparkler: Open scientific N-dimensional image processing :microscope:
xies/images
xies/MATLAB_utils
Basic MATLAB utilities
xies/napari
napari: a fast, interactive, multi-dimensional image viewer for python
xies/pystackreg
A python extension for the automatic alignment of a source image or a stack (movie) to a target image/reference frame.
xies/rb_seq_analysis
xies/rb_toy_model
xies/roipoly.py
Select a polygonal region of interest (ROI) with python and matplotlib, similar to the roipoly.m function from MATLAB.
xies/Skotheim_Ilastik_Pipeline
Skotheim lab pipeline for image analysis using Ilastik
xies/ultrack
Cell tracking and segmentation software
xies/weblogo
WebLogo 3: Sequence Logos redrawn
xies/YeaZ-GUI
An interactive tool for segmenting yeast cells using deep learning.