CryoREAD: a computational tool using deep learning to automatically build full DNA/RNA atomic structure from cryo-EM map.
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Oct 14, 2024 - Python
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dna-structure
Here are 10 public repositories matching this topic...
Python snippets for PyMOL to be run in Jupyterlab via the jupyterlab-snippets-multimenus extension.
python snippets jupyter notebook pdb protein-structure jupyter-notebook literate-programming rna-structure jupyterlab grayscale molecular mmcif ligand biomolecular molecular-representation ribbon-diagram dna-structure moleclar-graphics
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May 9, 2024 - HTML
RNA/DNA 3D structure alignment tool
bioinformatics algorithm biology structural-biology structure dna alignment rna-structure rna biological-data-analysis superposition 3d structure-alignment 3d-structure bioinformatics-tool dna-structure rna-3d-structure nucleic-acid dna-3d-structure 3d-structure-alignment
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Sep 3, 2026 - Jupyter Notebook
RNA/DNA 3D structure alignment tool
bioinformatics algorithm biology structural-biology structure motif dna rna-structure rna biological-data-analysis superposition 3d 3d-structure bioinformatics-tool motif-search dna-structure rna-3d-structure nucleic-acid structural-motif dna-3d-structure
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Aug 3, 2026 - Python
PyMOL snippet library is written in Python for use in RStudio via the R reticulate package and the PyMOL Python API.
pdb rstudio protein-structure rmarkdown molecular-graphics pymol literate-programming rna-structure r-programming reticulate molecular-structure molecular-visualization molecular-artwork pymolpysnips dna-structure
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May 15, 2024 - Vim Snippet
Analysis of G-Quadruplexes across the tree of life
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Aug 14, 2025 - Jupyter Notebook
Analysis of RoseTTAFold2NA and AlphaFold 3 structure predictions to understand whether it can be used to determine the spacing and/or orientation preferences of transcription factors
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Feb 10, 2025 - Python
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Jun 21, 2023 - Jupyter Notebook
3D genome reconstruction engine utilizing Kirchhoff-Ilyukhin non-linear elastic rod theory, Debye-Hückel electrostatic screening, and multi-scale genomic rolling windows for real-time human DNA chromosome chaos diagnostics.
bioinformatics genomics markov-chain molecular-dynamics 3d-genome biophysics electrostatics ursina-engine dna-structure kirchhoff-rod
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Aug 29, 2026 - Python
Tool for fast inspection of PDB molecular files inside the terminal.
terminal pdb protein-structure molecule molecular-dynamics tui dna protein rna-structure rna terminal-based terminal-app ligand pdb-files pdb-parser pdb-structure tui-app dna-structure rcsb-pdb
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Feb 20, 2026 - Python
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