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Name: Zaki Jawaid

Type: User

Bio: Graduate Student Researcher at UC Davis, Computational Biophysics Sep 2018-Jun 2022.

Zaki Jawaid's Projects

andrewng_nn_from_scratch_in_python

Implementing the feedforward/backpropagation algorithm and for a 2 later neural network and applying it to the MNIST dataset.

bending_energy_calculations

Functions to calculate mean curvature energies of oblate spheroids, elliptical hyperboloids, and their various combinations, together with their surface area.

modified_yasara_scripts

Modified YASARA macros for specific data analysis tasks

point-spread-function-fitting-test

Given a tab delimited text file having values of x, y ,z and f(x,y,z), hypothesize that the f(x,y,z) ~ 3D gaussian. Find of best parameters of the 3D gaussian using a steepest descent algorithm - this is a manual check of the output of a new image analysis program for a new lattice light field microscope Input: Tab delimited file, having values of x, y, z, and f(x,y,z) Output: 3D Gaussian Parameters, comparitive plots (with options to generate test data).

yasara_data_analysis

Reads raw YASARA simulation data for hbonds, and outputs the counts as a fraction of time for all interfacial hydrogen bonds. Also provides mean energy and distance for interfacial hbonds. Optional single column outputs also exist for further analysis if needed.

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