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  1. Home
  2. Year: 2023
  3. Month: March

Month: March 2023

Jupytext 2-way reformat of Jupyter notebooks

Posted on March 29, 2023

Jupytext can save and reformat Jupyter notebooks I was trying to test a Jupyter notebook from NCBI titled “Getting Started with NCBI Data in Python” (March 2, 2022) that is now on a “Binder” web …

Posted in bioinformatics, Computing, Markdown, PythonTagged bioinformatics, Jupiter, jupyter lab, jupyter notebook, markdown, python, Rmarkdown

PyCharm IDE installation without Admin

Posted on March 14, 2023

PyCharm IDE Installation Having “Admin privileges” on an educational or business computer is becoming a rarity, as security reasons are increasingly important. However, there are often way to install a software for “just one user” …

Posted in bioinformatics, Programming, Python

Intelligent Systems for Molecular Biology – 2022 proceedings

Posted on March 14, 2023

Intelligent Systems for Molecular Biology – in Madison The International Society for Computational Biology (ISMB) Conference held the Intelligent Systems for Molecular Biology (ISMB) in Madison in July 2022. Conference details are still available online, but …

Posted in bioinformatics, Books, Computing, Programming, Protein Structure, Python, Scientific Communication

3D Molecular Structures Analysis with NCBI iCn3D

Posted on March 14, 2023

NCBI tutorial: iCn3D hands-on workshop “I see in 3D” (iCn3D) Structure Viewer is not only a web-based 3D viewer, but also a structure analysis tool interactively or in the batch mode […] – (Longer description.) …

Posted in Announcements, biochemistry, bioinformatics, Molecular Graphics, Protein Structure, PyMOL, Scientific Communication, sequence analysis

PyMOL Stereo viewing

Posted on March 1, 2023

  PyMOL Stereo viewing PyMOL can display stereo in many ways. Unless special equipment is available, the method is to split the PyMOL 3D view area in two with the command stereo on (and stereo …

Posted in biochemistry, Molecular Graphics, Protein Structure, PyMOL, Scientific CommunicationTagged 3D, 3D visualization, autostereogram, Molecular Graphics, PyMOL, stereo, stereoscopic

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