HasiHays

2020plus

Classifies genes as an oncogene, tumor suppressor gene, or as a non-driver gene by using Random Forests

awesome-biology

Curated (meta)list of resources for Biology.

awesome-cheminformatics

A curated list of Cheminformatics libraries and software.

awesome_spatial_omics

tools and notes for spatial omics

breast-cancer-sub-types

A novel self-supervised feature extraction method using omics data is proposed which improves classification in most of the classifiers.

CellClassificationMachineLearning

Single Cell Classification using RNA-seq data and Supervised Learning Algorithms

cheminformatics

Facilitates searching, screening, and organizing large chemical databases

Computational-Medicine

PyBioNetGen

A simple CLI for BioNetGen

scRNA-tools

Table of software for the analysis of single-cell RNA-seq data.

HasiHays/Catalyst.jl

Chemical reaction network and systems biology interface for scientific machine learning (SciML). High performance, GPU-parallelized, and O(1) solvers in open source software.

HasiHays/cobrapy

COBRApy is a package for constraint-based modeling of metabolic networks.

HasiHays/metaGEM

:gem: An easy-to-use workflow for generating context specific genome-scale metabolic models and predicting metabolic interactions within microbial communities directly from metagenomic data

HasiHays/auto-sklearn

Automated Machine Learning with scikit-learn

HasiHays/BayesianTools

General-Purpose MCMC and SMC Samplers and Tools for Bayesian Statistics

HasiHays/BI-BE-CS-183-2023

Introduction to Computational Biology and Bioinformatics Course at Caltech, 2023

HasiHays/BoxSERS

Python package that provides a full range of functionality to process and analyze vibrational spectra (Raman, SERS, FTIR, etc.).

HasiHays/bulk-rnaseq

Bulk RNA-seq analysis.

HasiHays/CellChat

R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data

HasiHays/COMMOT

HasiHays/CompBiology-Biophysics

It's an general repository containing multiple script for several task into computational biophysics or biology.

HasiHays/grnboost2-configuration

Repository for storing general use configuration files for grnboost2

HasiHays/hisat2

Graph-based alignment (Hierarchical Graph FM index)

HasiHays/indra

INDRA (Integrated Network and Dynamical Reasoning Assembler) is an automated model assembly system interfacing with NLP systems and databases to collect knowledge, and through a process of assembly, produce causal graphs and dynamical models.

HasiHays/LFPy

Python-module for calculation of extracellular potentials from multicompartment neuron models and networks

HasiHays/Mathematical_biology

HasiHays/MCSBBootcamp2023

UC Irvine Mathematical Computational Systems Biology Bootcamp Computational Modules

HasiHays/opthalmic-biomarker-detection

HasiHays/pandora

PANDORA Advanced Machine Learning for Data Integration, Analysis, and Insightful Discoveries in Health and Disease :computer:

HasiHays/pmbio.org

Website for the precision medicine workshop

HasiHays/PyNanoLab

all in one GUI software for data analysis and visualization

HasiHays/scikit-learn

scikit-learn: machine learning in Python

HasiHays/scipy

SciPy library main repository

HasiHays/seurat-data

Dataset distribution for Seurat

HasiHays/SPiCCAto

Software developed to study the influence of the extracellular matrix in cell migration.

HasiHays/squidpy_notebooks

Tutorials for Squidpy

HasiHays/TopoStats

An AFM image analysis program to batch process data and obtain statistics from images

HasiHays/tradingview-pinescript-indicators

A collection of the various technical indicators implemented in Pine Script Language

HasiHays/visium_heart

Spatial transcriptomics of heart tissue

HasiHays/Zeigler_CPT2021

Code from Zeigler et al. CPT 2021, "Network model-based screen for FDA-approved drugs affecting cardiac fibrosis"