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3d_from_dms_extended_data

about_writing

some generic (but hopefully still useful) recommendations on writing your thesis

compbiology

contact-vis

Python package for simple protein residue-residue contact map plotting.

contact_prediction_scripts

Scripts for contact prediction

cvw_pyhp

Supplementary material for Cornell CVW on "Python for High Performance"

data-science--cheat-sheet

Cheat Sheets

datascience-in-computational-biology

deepdom

DeepDom is an ab-initio method for protein domain boundary prediction

deepmetapsicov

Deep ResNet-based protein contact prediction

deepmind-research

This repository contains implementations and illustrative code to accompany DeepMind publications

dynamic_programming

This is the code for "Dynamic Programming" by Siraj Raval on Youtube

esm

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

evcouplings

Evolutionary couplings from protein and RNA sequence alignments

exmachina

Sequence aligner for accurate template-based protein structure prediction

gremlin_cpp

GREMLIN - learn MRF/potts model from input multiple sequence alignment! Implementation now available in C++ and Tensorflow/Python!

hh-suite

Remote protein homology detection suite.

home

kmeans-plus-plus

Final Class Project for Big Data Mining

learn_deep_learning_in_6_weeks

This is the Curriculum for "Learn Deep Learning in 6 Weeks" by Siraj Raval on Youtube

learning-bioinformatics-at-home

resources for learning bioinformatics

linear_programming

machinelearning

Learning machine learning model: beginners level

map_align

Contact map alignment

matplotlib-tutorial

Matplotlib tutorial for beginner

mfdca

ml-from-scratch

Machine Learning From Scratch. Bare bones NumPy implementations of machine learning models and algorithms with a focus on accessibility. Aims to cover everything from data mining to deep learning.

multicom

The MULTICOM protein structure system. This repository include the source code and documents of both template-based and template-free modeling of the MULTICOM protein structure prediction system. 1D feature prediction, contact prediction, and clustering-based model ranking programs are also included.

pconsc4

Fast and easy contact prediction.

pdb-tools

Set of utility scripts to manipulate PDB files