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534_final_proj

Final assignment for statistical computing at UW.

534hw7

Eric's homework for Statistical Computing at UW

battle-lab-guide

Battle Lab guide to MARCC

bemc

big_data_hw2

Homework for CSE547 / STAT548 at UW

binco

A fork and update of BINCO, previously found at https://cran.r-project.org/package=BINCO

branchmodel

Fit a Y shape to your data.

dcdfg

doubletfinder

R package for detecting doublets in single-cell RNA sequencing data

ekernf01.github.io

Build a Jekyll blog in minutes, without touching the command line.

epoch

gene regulatory network reconstruction from scRNA-Seq

eric_prelim_code

This project implements a method for stochastic modeling of biochemical systems.

freezr

R package to help organize data analysis projects.

gears

GEARS is a geometric deep learning model that predicts outcomes of novel multi-gene perturbations

gears_misc

Reproduction attempt for figure 2b in the GEARS preprint

geneformer_embeddings

A wrapper to extract perturbed cell embeddings from GeneFormer.

ggrn

Python implementation for a flexible Grammar of Gene Regulatory Network inference methods (GGRN)

ggrn_backend2

Wrapper allowing use of DCD-FG with a standardized interface

ggrn_docker_backend

Tutorial describing how to make an arbitrary backend for GGRN via Docker.

gm

Gaussian Mirror R Package

heart_choosing_stat_methods

A short freshman course on criteria for choosing statistical methods.

homebrew-bugs

BUGS for Homebrew

irene

Reconstruct Gene Regulatory Networks from transcriptomics and epigenetics data and predict instructive factors of cellular conversions

jlookc

Julia code for loading and using compact leave-one-out knockoffs.

kniterati

Write your packages in R markdown and use kniterati::kniterate() right before devtools::document().

knockoffs_beeline

Adaptation of the BEELINE single-cell GRN benchmarking framework.

knockoffs_boolode

Data generation for our "easy mode" benchmarking of model-X knockoffs.

knockoffs_ecoli

E. coli experiments for our manuscript "General conditional hypothesis tests suggest fundamental limits on regulatory network identification".

knockoffs_paper

Landing page for our knockoff TRN project

knockoffs_quick_demo

A quick demonstration of the most important distinctive features of rlookc.