Pinned Repositories
BiBench
BiBench is a Python library designed to simplify biclustering tasks.
blacktie
Blacktie: a streamlined interface to the popular tophat/cufflinks RNA-seq pipeline
Combinatorics
This set of basic combinatorics functions supplements Python's itertools module.
conda-package-repo
This is a site to host my self-built conda packages for cross location installations.
cookiecutter-snakemake-analysis-pipeline
A cookiecutter template that reflects my favored structure for setting up Snakemake-based analysis pipelines.
rSeqPipeline
personal RNAseq analysis pipeline for the lab
scipherPyProj
Collection of bioinformatic python code.
table_enforcer
Table Enforcer is my attempt to apply a sort of "test driven development" workflow to data cleaning and validation. A python package to facilitate the iterative process of developing and using schema-like representations of DataFrames in pandas for recoding and validating instances of these data.
xguse's Repositories
xguse/table_enforcer
Table Enforcer is my attempt to apply a sort of "test driven development" workflow to data cleaning and validation. A python package to facilitate the iterative process of developing and using schema-like representations of DataFrames in pandas for recoding and validating instances of these data.
xguse/snaketools
xguse/vimDDR
Improve your vim reflexes!
xguse/alignparse
Align sequences and then parse features.
xguse/anaconda-cloud-recipes
My repo for conda build recipes intended to be hosted by me on anaconda.org
xguse/bioconda-recipes
Conda recipes for the bioconda channel.
xguse/Boostnote
🚀 Boostnote is an open source note-taking app made for programmers just like you.
xguse/conda-recipes
build and test recipes for conda
xguse/cookiecutter-pypackage
Cookiecutter template for a Python package.
xguse/cookiecutter-python-cli
xguse/crunchers
A library that provides a set of helper functions etc that I tend to use a lot when crunching data with scikit-learn, pandas, et al.
xguse/db_tools
xguse/dms_variants
Analyze deep mutational scanning of barcoded variants.
xguse/easygv
Define nodes and edges in an excel file and graph-style attributes in a yaml file with inheritance.
xguse/erd_elf
xguse/fcsparser
a python parser for reading fcs files supprorting fcs 2.0, 3.0, 3.1
xguse/FlowCytometryTools
A python package for visualization and analysis of high-throughput flow cytometry data
xguse/gemini
a lightweight db framework for exploring genetic variation.
xguse/GEOparse
Python library to access Gene Expression Omnibus Database (GEO)
xguse/gus_work_notes
xguse/gvl_commandline_utilities
Scripts for users of GVL cloud instances. These scripts configure GVL servers as command line bioinformatics platforms.
xguse/holographer
Holographer copies a filesytem object to a storage location and creates in its place a symlinked decoy pointing to the stored target. Think of when you run out of HDD space and need to move things to free up space. Holographer moves your files but replaces them with a hologram to appease your system.
xguse/logzero
Robust and effective logging for Python 2 and 3.
xguse/pansim
An effort to develop my abilities with regard to simulating complex systems and extracting useful insights from the simulations.
xguse/petrinet_explore
xguse/RunRed
This takes Registry Data and breaks it up into unique event based dataframes
xguse/samr_proteomics
xguse/wlog
xguse/XKCD-password-generator
Generate secure multiword passwords/passphrases, inspired by XKCD
xguse/zshrc
Base and custom .zshrc files