dzyla
Instructor in the Saphire group at the LJI. ETHZ Alumnus. Structural biology/protein biochemistry. #cryoEM #python
La Jolla Institute for ImmunologySan Diego
Pinned Repositories
AF3_JSON_generator
Generate UniProt-based AlphaFold3 JSON including all annotated post-translational modifications
biorxiv_search
Fast semantic search for biorXiv manuscripts
cryoem_notebook
Cryo-EM notebook example for processing in Relion and cryoSPARC
cryoEM_plotly
Plot the cryoEM maps using plotly and open them in the browser!
EPU_beamtiltclasses
Very simple script for EPU users which adds beam tilt classes to the star file
Follow_Relion_gracefully
New program to follow Relion projects in a browser!
MRC_napari_viewer
Cryo-EM data viewer in napari
Relion_follow_classification
Follow your classification and refinement in Relion the real time!
relion_to_cistem
Converts autopick cooridinates from Relion to cisTEM
umod_processing_scripts
A library of scripts which were used to analyze and visualize the data
dzyla's Repositories
dzyla/Follow_Relion_gracefully
New program to follow Relion projects in a browser!
dzyla/biorxiv_search
Fast semantic search for biorXiv manuscripts
dzyla/EPU_beamtiltclasses
Very simple script for EPU users which adds beam tilt classes to the star file
dzyla/AF3_JSON_generator
Generate UniProt-based AlphaFold3 JSON including all annotated post-translational modifications
dzyla/cryoem_notebook
Cryo-EM notebook example for processing in Relion and cryoSPARC
dzyla/disc-personality-assessment
A modern DISC personality assessment app built with Streamlit and Python for generating personalized DISC profiles.
dzyla/Hugo_shortcode_gallery
simple yet stylish Hugo shorcode gallery
dzyla/30-Days-Of-Python
30 days of Python programming challenge is a step-by-step guide to learn the Python programming language in 30 days. This challenge may take more than100 days, follow your own pace.
dzyla/learn_cryoem_math
dzyla/pubmed_search
Manuscript semantic search tool for PubMed and bioRxiv
dzyla/relion
Image-processing software for cryo-electron microscopy
dzyla/script_repo
Repository to keep some my scripts on Github
dzyla/segment-anything
An unofficial Python package for Meta AI's Segment Anything Model
dzyla/select_micrographs_from_jpegs
dzyla/40years_of_cryoem
Abstract embaddings of cryo-EM related manuscripts from PubMed and bioRxiv
dzyla/al2co
AL2CO - A Program to Calculate Positional Conservation in a Protein Sequence Alignment (September, 2000)
dzyla/DL4Proteins-notebooks
Colab Notebooks covering deep learning tools for biomolecular structure prediction and design
dzyla/dotplot_protein
Script for creating a dotplot
dzyla/elisa
dzyla/generative-ai-for-beginners
12 Lessons, Get Started Building with Generative AI 🔗 https://microsoft.github.io/generative-ai-for-beginners/
dzyla/lapreprint1
dzyla/MoMAColors
Color Schemes based around artwork and the Museum of Modern Art.
dzyla/pilus_stability
Code related to pilus stability manuscript
dzyla/pisa_interface_plotter
A tool for parsing PISA XML files
dzyla/plot-chormatogram
Chromatogram plotting tool
dzyla/Pythia
Structure-based self-supervised learning enables ultrafast prediction of stability changes upon mutations
dzyla/seq_align
dzyla/SPACE
Sequence Protein Alignment and Conservation Engine (SPACE)
dzyla/SSBONDPredict
A machine learning method for disulfide bond engineering site prediction based on structures
dzyla/surfwithbeniz
bday gift website joke