Tim Treis timtreis

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timtreis / 10_verify_data.ipynb

Created September 17, 2025 16:03

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timtreis / find_flax_version.md

Created August 14, 2024 13:42

conda create --name tmp python=3.10
mamba install scvi-tools=1.1.2 jaxlib=0.4.16 jax=0.4.16 -c conda-forge
mamba install conda-forge::flax

timtreis / read_stereoseq.py

Created June 26, 2023 14:02

read stereoseq files

pass

timtreis / get_legend_title.R

Created June 21, 2022 07:45

Method to extract the title from a ggplot legend

	library("visR")

	get_legend_title <- function(gg) {

	ggb <- ggplot2::ggplot_build(gg)
	ggt <- ggplot2::ggplot_gtable(ggb)

	legend_grob_id <- which(sapply(ggt$grobs, function(x) x$name) == "guide-box")
	legend_grob <- ggt$grobs[[legend_grob_id]]

timtreis / spec_helper.R

Last active July 8, 2021 15:17

visR - specifications helper

	#!/usr/bin/env Rscript

	args = commandArgs(trailingOnly = TRUE)

	get_all_tests = function(file_path) {

	txt = base::paste(base::readLines(file_path, warn = FALSE), collapse = "\n")
	matches = base::gregexpr("testthat::test_that\\(\\\"(.+?)\"", txt)

	return(matches)

timtreis / helpers.py

Last active May 3, 2020 15:34

Python helper functions

	print("Successfully imported ttreis helper functions")

	def rgb2hex(r,g,b):

	return "#{:02x}{:02x}{:02x}".format(r,g,b)

	somsault_1 = rgb2hex( 0, 0, 0) # black
	somsault_2 = rgb2hex( 0, 73, 73) # dark grey
	somsault_3 = rgb2hex( 0, 146, 146) #009999, approx. "Persian Green"
	somsault_4 = rgb2hex(255, 109, 182)