Pinned Repositories
animated_matplotlib_classic-binder
Notebook to demonstrate animated plots with Matplotlib in classic Jupyter notebook interface & NbClassic served via MyBinder system.
blast-binder
Repo for running command line-based BLAST in Jupyter environment provided via Binder.
methods_in_yeast_genetics
a collection of Jupyter notebooks for doing calculations related to Methods in Yeast Genetics book
mini-pipelines
collection of scripts that chain together other scripts by preparing and processing/transforming data.
sequencework
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
structurework
programs and scripts for molecular structure analysis
yeastmine
using YeastMine (populated by SGD and powered by InterMine) to mine yeast Saccharomyces cerevisiae genetics data
fomightez's Repositories
fomightez/mini-pipelines
collection of scripts that chain together other scripts by preparing and processing/transforming data.
fomightez/dataframe2img
Styled Pandas dataframe saved as an image that will be viewable when a Jupyter notebook is reloaded.
fomightez/circos-binder
Run Circos software in a Jupyter environment served by MyBinder.org.
fomightez/yeastmine
using YeastMine (populated by SGD and powered by InterMine) to mine yeast Saccharomyces cerevisiae genetics data
fomightez/cl_sq_demo-binder
A collection of demonstrations of useful resources for command line / Jupyter session manipulation of sequence files.
fomightez/pro-origami-binder
Alex Stivala & colleagues' Pro-origami software for making protein structure wiring diagrams bundled up for use via MyBinder-served Jupyter sessions.
fomightez/3Dscatter_plot_mod_playground-binder
Playground to test 3D scatter plot examples in modern JupyterLab and Jupyter Notebook via Binder
fomightez/bendit-binder
Bend.it software to predict DNA curvature combined with Jupyter ecosystem served via MyBinder.org
fomightez/cl_demo-binder
A collection of demonstrations of useful resources for command line / Jupyter session manipulation of structure files.
fomightez/gel_image_annotation
Simple script for automatically annotating SDS-PAGE gel images
fomightez/intermine-binder
Intermine Web Services available in a Jupyter environment running via the Binder service
fomightez/PDBrenum
fomightez/AFM-LIS-binder
Local Interaction Score (LIS) Calculation from AlphaFold-Multimer (Enhanced Protein-Protein Interaction Discovery via AlphaFold-Multimer) made to work with the MyBinder service.
fomightez/bigdft-binder
binderized Bigdft stuff - see https://stackoverflow.com/a/78868235/8508004
fomightez/DashfromDunder
my fork of Python data science and machine learning from Ted Petrou with Dunder Data to see if can restore working on MyBinder and working Dash app
fomightez/Fasta2Structure-cli
A User-Friendly Tool for Converting Multiple Aligned FASTA Files to STRUCTURE Format made more user-friendly by allowing it to work without outdated-looking tkinter. Runs on command line interface directly so it can be used on computer clusters or used in Jupyter.
fomightez/jupyterlab-quickopen
Quickly open a file in JupyterLab by typing part of its name
fomightez/jupyterlite-demo
JupyterLite demo (ended up needed Xeus-Python flavor to do what I wanted)
fomightez/jupyterlite-xeus-demo
JupyterLite but with the Xeus-Python kernel so can pre-install packages, mainly at this time to demonstrate sidecar will work
fomightez/mobilechelonian
Turtles on a notebook with ipywidgets pinned to older
fomightez/msms_wrapper
Small python wrapper for the msms program (adapted slightly to work with MyBinder)
fomightez/nbody_whatever
Binderizing - toy N-body simulator: convert any image into N-bodies and let them gravitate
fomightez/notebooks-collection-opendata
A set of simple notebooks using 8 TeV and 13 TeV ATLAS Open Data datasets TO TEST WORKING IN MYBINDER
fomightez/Parcels
Main code for Parcels (Probably A Really Computationally Efficient Lagrangian Simulator)
fomightez/pypowertrain-dash-binder
Electric powertrain characterisation and optimisation (Fork to fix Dash in Binder)
fomightez/SICILIAN-binder
Fork of https://github.com/salzman-lab/SICILIAN made to work with MyBinder.org
fomightez/sim-eye
Module to take fundus images and produce printable nets of simulation eyes for use in ophthalmology training.
fomightez/vis-bindertest
testing JN launches
fomightez/voici-demotestBASEDonOLDrepo
Demo of Voici (Voila/JupyterLite) based on the demo repo as it existed well before May 2024
fomightez/ZDFmmD3xv4S7