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Home_made machinery for image and seq analysis

Project description

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alva_machinery.distribution and .packing

are for Visualizing Tcell clonal distribution

The related repository contains code for mathematical visualization of T-cell receptor sequencing data by Power-law, Yule-Simon, and Ewens statistical distributions initially described in the paper:

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alva_machinery.markov

is for Identifying neurite by RRS method

The related repository contains code for implementing the RRS method initially described in the paper:

https://doi.org/10.1038/s41598-019-39962-0

https://www.nature.com/articles/s41598-019-39962-0

Random-Reaction-Seed Method for Automated Identification of Neurite Elongation and Branching
by Alvason Li (2019)

(is still working on this repository, a new AlvaHmm package will be ready soon...)

Overview

tracing neurite in microfuidic device

Prerequisites

This code is written and tested in Python 3.6.5. The required Python libaries are:

  • NumPy
  • SciPy
  • Matplotlib

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