bioactivity-prediction-with-ml

Create a bioactivity prediction model using molecular descriptors (PADEL) and supervised machine learning (ML).

biofx_python

Code for Mastering Python for Bioinformatics (O'Reilly, 2021, ISBN 9781098100889)

bioinformatics-tools

simple bioinfomatics tools

biomart-from-ensembl-id-to-entrez-ac

This R script allow you to retrieve entrez gene accession from ensembl gene ids from RNA seq analysis. Entrez symbols can then utilize to perform gene enrichment analysis of up and downregulate genes in platforms like Enrichr.

biotech-research-hub

a comprehensive repository designed to empower researchers, scientists, and enthusiasts in the fields of bioinformatics and biotechnology. This repository serves as a one-stop destination for a myriad of invaluable resources, ranging from insightful guides and cutting-edge research papers to informative podcasts, web tools, and efficient workflows

biotechub-blog

captum

Model interpretability and understanding for PyTorch

codon_usage_optimization

computer_aided_drug_discovery_kit

This pipeline provides a way to perform pharmaceutical compounds virtual screening using similarity-based analysis, ligand-based and structure-based techniques. The pipeline contains a collections of modules to perform a variety of analysis.

data-science-for-beginners

10 Weeks, 20 Lessons, Data Science for All!

deepfri

Deep functional residue identification

distributed_drug_discovery_project

The scope of the project is to create a public and easy to access repository containing a vast coort of similarity-based drug discovery models.

enerve

eNERVE is a dynamic, high-throughput and standalone in silico reverse vaccinology pipeline for eukaryotic protein candidate vaccines (PVCs) discovery from entire proteomes (FASTA file).

enerve-gui

eNERVE graphic user interface via Docker

enerve_code

enerve code repo for docker container

enerve_deepfri_data

pre-trained models to run DeepFRI in enerve

esm

Evolutionary Scale Modeling (esm): Pretrained language models for proteins

esm2_experiments

Repository containing colab sheets for experimenting with ESM2 pre-trained large protein language model.

fasta-reader-proteins

An easy fragment of code to read in fasta format files

francescopatane96

Config files for my GitHub profile.

francescopatane96.github.io

gintomics

gintomics-visualizer

gpt_api_prompting_course

hidden_markov_models

Hidden markov models implementation tutorials

ibm3202

Google Colab Tutorials for IBM3202

ifeature

iFeature is a comprehensive Python-based toolkit for generating various numerical feature representation schemes from protein or peptide sequences. iFeature is capable of calculating and extracting a wide spectrum of 18 major sequence encoding schemes that encompass 53 different types of feature descriptors. Furthermore, iFeature also integrates fi

ifeatureomega-cli

iFeatureOmega is a comprehensive platform for generating, analyzing and visualizing more than 170 representations for biological sequences, 3D structures and ligands. To the best of our knowledge, iFeatureOmega supplies the largest number of feature extraction and analysis approaches for most molecule types compared to other pipelines. Three versio

learn-r

lineardesign

The LinearDesign mRNA design software.