Topological Data Analysis for Python🐍

Distances and representations of persistence diagrams

Topological Data Analysis in Python: Simplicial Complex

A homology-based, computationally lightweight pipeline for discovering genes in the absence of an assembly

Workflow for identifying and classifying homologous gene/protein sequences

Find reciprocal best hits (DIAMOND or BLAST) between two (or more!) sets of sequences.

Use Thor's Axe to cut exons into their evolutionary building blocks ⚡

华中科技大学软件安全课程设计2019

A simple python project for computing persistent homology

UDiPH is a package that creates a new metric space where the points are uniformly sampled with respect to a global metric. It is oriented for creating Vietoris-Rips filtrations that are independent of the metric of the initial space.

Our implementation of the Smith Normal Form algorithm.

A simple calculator for simplicial homology of finite Delta complexes using Smith normal forms. Final project of MATH 2410: Topology, instructed by Richard Schwartz.

A bunch of python script and classes to experiment with homology, knot theory and neural networks

Hex on a Voronoi board, using homology to determine game state

Compute persistent homology with coefficients in the field Z/2Z

Algorithm I made accompanying my Master's thesis.

Draw graphs corresponding to double occurrence words and study their properties.

Algorithm to parse, assemble and align genomic sequences by use machine learning techniques. The resulting sequences are used to form NCBI-BLAST respects and return sequence homologs.

A tool to compare protein sequences across UniProt and NCBI RefSeq