khughitt

dotfiles

My dotfiles.

labnote

A light-weight HTML lab notebook generator

bioinformatics-conf-vids

List of conferences with talk videos posted online

cats

cat for sequence files.

anki-chinese

Generate Anki vocab decks from Chinese texts.

EuPathDB

EuPathDB recipe for the Bioconductor AnnotationHub

snakes

Data integration and machine learning pipeline built on Snakemake

3d-force-graph

3D force-directed graph component using ThreeJS/WebGL

annotables

R data package for annotating/converting Gene IDs

aoc22

Advent of Code 2022 Solutions

benchmark-correlation

R/Python correlation performance benchmarks

frictionless-py

Data management framework for Python that provides functionality to describe, extract, validate, and transform tabular data

GEOquery

The bridge between the NCBI Gene Expression Omnibus and Bioconductor

GVHD-SingleCell

mesa

Mesa is an open-source Python library for agent-based modeling, ideal for simulating complex systems and exploring emergent behaviors.

missMethods

Methods for Missing Data

mm30-geo-data-pipeline

MM30 GEO dataset preparation pipeline

mm30-shiny

MM30 Shiny UI

nguyen23-crispr-guided-multiomics

Transcriptomics and phosphoproteomics analysis code for "CRISPR-guided multiomics unveils direct mTOR inhibition of Hippo signaling through CDCP1" (Nguyen et al., 2023)

quanteda

An R package for the Quantitative Analysis of Textual Data

sioyek

Sioyek is a PDF viewer designed for reading research papers and technical books.

snakemake-feature-phenotype-associations

A Snakemake pipeline for inferring feature-phenotype associations for paired datasets.

snakemake-fgsea

Snakemake Pipeline for Functional Enrichment Analysis using fgsea

snakemake-pubtator-co-occurrence

Snakemake PubTator co-occurrence matrix construction pipeline

snakemake-recount

Snakemake Recount2 Download Pipeline

sparse-matrix

Sparse matrix library

stanza

Official Stanford NLP Python Library for Many Human Languages

textual-autocomplete

Easily add autocomplete dropdowns to your Textual apps

three-lsystem

zeit

Zeit, erfassen. A command line tool for tracking time spent on activities.