Stephen Turner stephenturner

Summary

Produced with gemma2

This looks like a collection of posts from data scientists and R enthusiasts on the social platform "Bsky". Let's break down what we see:

Key Themes:

R Programming: The most prevalent theme is R programming itself. Users are discussing tips, tools, problems, and solutions within the R ecosystem.
Data Visualization & Analysis: Many posts showcase projects or techniques using R for data visualization and analysis.

	################################################################################
	# GCP/AWS setup script for general bioinformatics
	# Base image: Ubuntu 22.04 LTS x86/64
	################################################################################

	# Make a directory in which to build stuff
	sudo mkdir -p ${HOME}/build && sudo chmod 777 ${HOME}/build && cd ${HOME}/build

	# Install system libs
	sudo apt-get update

	library(tidyverse)
	library(rvest)
	library(tidytext)

	## Function to get full text given a DOI
	get_full_text <- function(doi) {
	paste0("https://www.biorxiv.org/content/", doi, ".full") \|>
	rvest::read_html() \|>
	rvest::html_nodes("div.section") \|>
	rvest::html_text() \|>

	// Place your key bindings in this file to overwrite the defaults
	[
	// RStudio: Copy lines up/down with alt+cmd+up/down
	{
	"key": "alt+cmd+down",
	"command": "editor.action.copyLinesDownAction",
	"when": "editorTextFocus && !editorReadonly"
	},
	{
	"key": "shift+alt+down",

	# R session 1: model training and deployment ------------------------------

	library(tidymodels)
	library(vetiver)
	library(plumber)

	# Not the way you'd actually split data - for demo only
	cars_train <- mtcars[1:24,]
	cars_test <- mtcars[25:32,]

	#!/usr/bin/env python

	# Adds allelic depth (AD)=2 to a VCF.
	# Usage: bcftools view my.vcf.gz \| addad.py \| bcftools sort -Oz -o my.ad.vcf.gz && tabix my.ad.vcf.gz

	import pysam

	vcf_in=pysam.VariantFile("-","r")

	vcf_in.header.formats.add("AD",".","Integer","Allelic depth, hard-coded as 2")

	# Start window and pane indices at 1 instead of 0
	set -g base-index 1
	set -g pane-base-index 1

	# Shift arrow keys to move around panes
	bind -n S-Up select-pane -U
	bind -n S-Down select-pane -D
	bind -n S-Left select-pane -L
	bind -n S-Right select-pane -R