Skip to content
View alihashmiii's full-sized avatar
🧑‍🔬
🧑‍🔬

Highlights

  • Pro

Block or report alihashmiii

Block user

Prevent this user from interacting with your repositories and sending you notifications. Learn more about blocking users.

You must be logged in to block users.

Please don't include any personal information such as legal names or email addresses. Maximum 100 characters, markdown supported. This note will be visible to only you.
Report abuse

Contact GitHub support about this user’s behavior. Learn more about reporting abuse.

Report abuse
alihashmiii/README.md

𐌀li ℍashmi, ℙh.𝔻.

I have a PhD in biophysics. I am primarily interested in the mathematical/computational and experimental approaches for exploring the physical basis of biological development. I am broadly interested in scientific programming, symbolic computing, image processing/computer vision and machine learning!


Following are the examples of some codes/scripts I have developed:

3D Vertex Model: A Mathematica code for simulating biological tissues in 3D ❂ 2D Vertex Model: Simulate biological tissues in 2D ❂ Force Inference: Infer forces from an epithelial tissue ❂ Nematic Defect: compute nematic defects from phase contrast images of tissues ❂ UNET segmentation: The first UNET implementation in Mathematica/Wolfram Language ❂ Elliptic Fourier Descriptor: Elliptic Fourier Descriptors for describing shapes ❂ CurvatureMeasure: Determine curvature of objects ❂ SMtrack and Lineage-Mapper: Track single molecules and cells respectively


Pinned Loading

  1. Elliptical-Fourier-Descriptors Elliptical-Fourier-Descriptors Public

    elliptical fourier descriptors with and without lobe contributions

    Mathematica 13 4

  2. 3D-Vertex-Model 3D-Vertex-Model Public

    vertex model implementation to simulate biological tissue in 3D

    Mathematica 10 2

  3. Force-Inference Force-Inference Public

    implementation of the Bayesian Force Inference technique based on the work of Ishihara and Sugimura

    Mathematica 4 2

  4. UNet-Segmentation-Wolfram UNet-Segmentation-Wolfram Public

    neural network for obtaining binarized mask for objects in grayscale images

    Mathematica 14 6

  5. 2D-vertex-model 2D-vertex-model Public

    vertex model for simulating two-dimensional epithelial tissues

    Mathematica 7 2

  6. Nematic-Defect Nematic-Defect Public

    compute nematic defects from images

    Mathematica