Pinned Repositories
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.
pdbepisa-binder
Using data from PDBePISA with the convenience of Python and Jupyter.
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/sequencework
programs and scripts, mainly python, for analyses related to nucleic or protein sequences
fomightez/structurework
programs and scripts for molecular structure analysis
fomightez/animated_matplotlib-binder
Notebook to demonstrate animated plots with Matplotlib in JupyterLab and Jupyter Notebook 7+ served via MBinder system.
fomightez/dataframe2img
Styled Pandas dataframe saved as an image that will be viewable when a Jupyter notebook is reloaded.
fomightez/communication_voila
a number of demonstrations of plots and ipywidgets widgets in notebooks and Voila
fomightez/text_mining
general text mining and text manipulation with Python scripts
fomightez/cl_sq_demo-binder
A collection of demonstrations of useful resources for command line / Jupyter session manipulation of sequence files.
fomightez/3Dsurface_plot-binder
3D surface plot examples via Binder
fomightez/bear-classifier
fomightez/pyscript_test
All the cool people are trying pyscript.
fomightez/simulated_data
A repository for code that generates various simulated data.
fomightez/dataframe2summary
Repo for demonstrating scripts that convert dataframes / data tables into summarized dataframes / data tables.
fomightez/fqgrep-binder
Demonstrating Fulcrum Genomics' fqgrep in MyBinder-served sessions
fomightez/general_scripted_plotting
Scripts that make plots of generalized data.
fomightez/gohugo-binder
Go-based static site generator HUGO running via binder served sessions.
fomightez/GREP
GREP: Genome for REPositioning drugs
fomightez/humap2-binder
Using data from hu.MAP 2.0 with the convenience of Python and Jupyter.
fomightez/humap3-binder
Using data from hu.MAP 3.0 with the convenience of Python and Jupyter.
fomightez/indraniel_fqgrep-binder
indraniel/fqgrep (An approximate sequence pattern matcher for FASTQ/FASTA files) working via MyBinder-served Jupyter sessions.
fomightez/Jupyter-desktop_with_pymol
Jupyter-Desktop with PyMOL installed
fomightez/logan_results_analysis-binder
Demonstrate analysis of Logan Search results in a MyBinder-served session.
fomightez/mesa
Mesa is an open-source Python library for agent-based modeling, ideal for simulating complex systems and exploring emergent behaviors.
fomightez/PDBmodelComparator
Tool to generate overviews between models of related macromolecular structures available in the Protein Data Bank.
fomightez/plotnine-prism
Prism themes for plotnine, inspired by ggprism.
fomightez/plotnine_prism-binder
Plotnine with Graphpad Prism themes styling served via the MyBinder service.
fomightez/shap
A game theoretic approach to explain the output of any machine learning model.
fomightez/test_mar_24_2025
test mybinder build March 24 2025
fomightez/test_nco
test copying notebooks-collection-opendata repo to unrelated to see if will build at all
fomightez/tutorials-pointcloud-python
Tutorials for pointcloud processing in Python (basic operations, spatial indexing, registration, segmentation & primitive fitting)
fomightez/voilasample-repo
seeing if template works