Name: Biafra Ahanonu
Type: User
Company: University of California, San Francisco
Bio: Research pain & movement in the brain. Develop computational tools for calcium imaging analysis.
PhD (Stanford). BSc (MIT).
Old repositories at @gaara42.
Twitter: syscarut
Blog: https://bahanonu.com
Biafra Ahanonu's Projects
For GitHub pages redirects, etc.
Matlab implementation of a source extraction and spike inference algorithm for large scale calcium imaging data analysis, based on a constrained matrix factorization approach.
Downloads and plots CDC statistics.
CIAtah (pronounced cheetah): a software package for calcium imaging analysis of one- and two-photon imaging datasets. Documentation: https://git.io/ciatah_docs. Formerly known as calciumImagingAnalysis (ciapkg).
File Exchange and related utilities for CIAtah.
Constrained Nonnegative Matrix Factorization for microEndoscopic data
Flexible Statistics and Data Analysis (FSDA) extends MATLAB for a robust analysis of data sets affected by different sources of heterogeneity. It is open source software licensed under the European Union Public Licence (EUPL). FSDA is a joint project by the University of Parma and the Joint Research Centre of the European Commission.
geoSatView: Downloads satellite data, crop images, and makes animation video.
getOptions: clean handling and parsing of variable arguments (varargin) into MATLAB functions.
A biplot based on ggplot2
Count project Lines of Code & generate a badge for display.
Device for injecting gradient-refractive index (GRIN) lens probes into animals.
A table containing imaging analysis tools for biology, with a focus on calcium imaging.
Karl Broman's website
Repository resources for various licenses, with Markdown formatting for inclusion into GitHub's repositories.
Code related to analyzing calcium imaging videos with Matlab
MATLAB function to check whether native toolboxes have licenses available and are installed.
A Matlab interface for reading and writing NWB files
A MINiscope 1-photon-based Calcium Imaging Signal Extraction PIPEline.
Matlab routines for online non-rigid motion correction of calcium imaging data
Image processing pipeline to correct motion artifacts and complex image distortions in neuronal calcium imaging data.
Shared scripts/code.
simple tool to count SLOC (source lines of code)
MATLAB code related to testing and running analysis on Stanford's HPC systems.