Samee Ullah's repositories
ligandMPNN_Colab
ligandmpnn Colab NoteBook
awesome-cryoem
A collaborative list of awesome CryoEM (Cryo Electron Microscopy) resources.
colabtools
Python libraries for Google Colaboratory
Computational-CryoEM
A curated list of awesome computational cryo-EM methods.
CryoEM
Various scripts I use for CryoEM data handling/analysis
cryoEM-Bash
scripts to monitor cryo-em jobs
cryoem-data-simulation
Python3 tools for simulating cryoEM particle data.
CryoEM-scripts-1
Badly written scripts for making cryoEM easier
dithymine-tetra-peptide-and-dA12-simulations
Initial structures of the dithymine tetra peptide and the dA12
mldl-md-dynamics
A repository of update in molecular dynamics field by recent progress in machine learning and deep learning.
mrc-em-gnome-thumbnailer
.MRC and .EM thumbnailer for GNOME
MycoplasmaGenitalium
Modelling of Mycoplasma genitalium
Orientation-Plotter
Plot cryoEM particle orientations from a .star file
papers_for_protein_design_using_DL
List of papers about Proteins Design using Deep Learning
Prompt-Engineering-Guide
🐙 Guides, papers, lecture, notebooks and resources for prompt engineering
protein-design-tutorials
Tutorials, cheat sheets, and other resources for computational methods for protein design.
Pseudocycle_small_molecule_binder
Small_molecule_binder_design_use_pseudocycles
RNArtist
RNArtist allows you to design and paint your RNA 2D structures interactively. Coupled with the 3D viewer UCSF Chimera, use your 2D as a map to explore RNA 3D architectures.
RosEM
Pipeline and GUI for cryoEM model refinement using Rosetta and Phenix
tanimoto-similarity
tanimoto-similarity
wqbio2022
cryoEM workshop introducing undergraduate students to image processing tools in Python