Pinned Repositories
casanger
Snakemake workflow for visualization of Cas9 nickase validation via Sanger sequencing
ethanholleman.github.io
Source code for Ethan Holleman's personal website.
fridge_master_2000
Making my old fridge smarter with raspberry pi zero and some sensors
ImageToBlink
Possibly the world's worst image encoder. Convert any image to a micropython program (tested on RPi Pico) that will use the onboard LED to blink hexidecimal image data via morse code.
leafly_scraper
Scripts for scraping and visualizing leafly.com strain data
plasmid-VR-design
Snakemake wrapped Python and R based workflow for generating and visualizing nucleotide regions with systematic variation in GC / AT skew and GC / AT content with or without clustering for R-loop formation investigation.
pyCaliLegi
Automate pulling basic information about California legislation using Python and the Selenium package.
RDBC
Rosetta ligand docking batch job submission control and organizer
rlooper
R-loop equilibrium energetic modeling and prediction software
Marco_Polo
Polo is a python GUI build using the PyQt library for high-throughput crystallization screening users. Created by Ethan Holleman for the 2020 BioXFEL summer internship program. Funding provided through NSF BioXFEL STC Grant Number 1231306, NSF BIO 2029943, NIH NIGMS 124135.
EthanHolleman's Repositories
EthanHolleman/TARP
Python scripts that build on Transposer to remap all LTR retrotransposons in Glycine max
EthanHolleman/Transposer
Python program designed to remap transposable elements from an outdated reference assembly to the most current version
EthanHolleman/fridge_master_2000
Making my old fridge smarter with raspberry pi zero and some sensors
EthanHolleman/500k_fib
Txt file containing the first 500,000 fibonacci numbers just for fun, calculated with the included python script.
EthanHolleman/BioBlender21
Blender plugin to process biological data and molecular work.
EthanHolleman/CB_Mini_Project
Comp 388 Mini Project
EthanHolleman/cd-hit-helper
Python scripts to make the usage and data interpretation from the CD-HIT program easier
EthanHolleman/cdhit
Automatically exported from code.google.com/p/cdhit
EthanHolleman/city-scrapers
Scrape, standardize and share public meetings from local government websites
EthanHolleman/cockatoo
A similarity metric for macromolecular crystallization conditions
EthanHolleman/CoRNonCOB
Compare really non-colossal oligonucleotides in bacteria
EthanHolleman/Cow-Bell
Collection of python scripts that pull cattle listings from Drover's cattle exchange and post to r/cattleexchange subreddit
EthanHolleman/extended_xtal
Thoughts on potential crystallization screen file format standardization expressed through json schemas
EthanHolleman/fasta_tools
Small but growing collection of personal python fasta methods with many desinged for use with files from SoyBase.com. Downloadable through pip
EthanHolleman/flaskScratch
Scratch work with Flask / SQL stuff
EthanHolleman/halLiftover-postprocessing
EthanHolleman/Hay_Harvest
Quick webscraper for All Hay.com https://allhay.com
EthanHolleman/IMCA-Data
EthanHolleman/jobby
Python based interactive command line interface for common tasks
EthanHolleman/la_website
EthanHolleman/models
Models and examples built with TensorFlow
EthanHolleman/PBS_CON
Code for finding primer binding site consensus sequences and visualizing
EthanHolleman/potoddsquiz
EthanHolleman/rlooper2
R-loop equilibrium energetics prediction software + some other experimental nucleic acid biophysics stuff
EthanHolleman/rm_verify
Pipeline to verify repeat masker results on incomplete assemblies.
EthanHolleman/Rskribbl
Create Skribbl.io wordbanks from the most frequently used words in Reddit comments
EthanHolleman/site
EthanHolleman/Soy_HMM
Experimenting with the R hidden markov model library with transposable elements data from Glycine Max
EthanHolleman/tea-seq
Code and documentation for analysis of transposable-element anchored PCR sequencing (tea-seq) data
EthanHolleman/Tutorials-and-Misc