nathanhaigh

#!/bin/bash
# Usage: deinterleave_fastq.sh < interleaved.fastq f.fastq r.fastq [compress]
# 
# Deinterleaves a FASTQ file of paired reads into two FASTQ
# files specified on the command line. Optionally GZip compresses the output
# FASTQ files using pigz if the 3rd command line argument is the word "compress"
# 
# Can deinterleave 100 million paired reads (200 million total
# reads; a 43Gbyte file), in memory (/dev/shm), in 4m15s (255s)
# 

piscisaureus

Locate the section for your github remote in the .git/config file. It looks like this:

[remote "origin"]
	fetch = +refs/heads/*:refs/remotes/origin/*
	url = git@github.com:joyent/node.git

Now add the line fetch = +refs/pull/*/head:refs/remotes/origin/pr/* to this section. Obviously, change the github url to match your project's URL. It ends up looking like this:

mayoff

(* To the extent possible under law, Rob Mayoff has waived all copyright and related or neighboring rights to “AppleScript to make Google Chrome open/reload a URL”. This work is published from: United States. https://creativecommons.org/publicdomain/zero/1.0/ *)
tell application "Google Chrome"
	activate
	set theUrl to "http://tycho.usno.navy.mil/cgi-bin/timer.pl"
	
	if (count every window) = 0 then
		make new window
	end if
	
	set found to false

etrepat

{
	// Sets the colors used within the text area
	"color_scheme": "Packages/Color Scheme - Default/Monokai.tmTheme",

	// Note that the font_face and font_size are overriden in the platform
	// specific settings file, for example, "Base File (Linux).sublime-settings".
	// Because of this, setting them here will have no effect: you must set them
	// in your User File Preferences.
	"font_face": "Monaco",
	"font_size": 12,

nathanhaigh

#!/bin/bash
# Usage: interleave_fastq.sh f.fastq r.fastq > interleaved.fastq
# 
# Interleaves the reads of two FASTQ files specified on the
# command line and outputs a single FASTQ file of STDOUT.
# 
# Can interleave 100 million paired reads (200 million total
# reads; a 2 x 22Gbyte files), in memory (/dev/shm), in 6m54s (414s)
# 
# Latest code: https://gist.github.com/4544979

ramhiser

#' Finds the local maxima (peaks) in the given vector after smoothing the data
#' with a kernel density estimator.
#'
#' First, we smooth the data using kernel density estimation (KDE) with the
#' \code{\link{density}} function. Then, we find all the local maxima such that
#' the density is concave (downward).
#'
#' Effectively, we find the local maxima with a discrete analogue to a second
#' derivative applied to the KDE. For details, see this StackOverflow post:
#' \url{http://bit.ly/Zbl7LV}.

jstorimer

#!/usr/bin/env ruby

# A simply utility to show character counts for each line of input and
# highlight lines longer than 80 characters.
#
# Written as an example for http://jstorimer.com/2011/12/12/writing-ruby-scripts-that-respect-pipelines.html
#
# Examples:
#
# $ hilong Gemfile

jhickner

#!/bin/sh
exec <"$0" || exit; read v; read v; exec /usr/bin/osascript - "$@"; exit

-- the above is some shell trickery that lets us write the rest of
-- the file in plain applescript

tell application "Google Chrome"
  activate
  tell application "System Events"
    tell process "Google Chrome"

dahtah

Have you ever seen these scatterplots that report a significant correlation between X and Y, but it looks like it's just the one point to the upper-right driving the correlation? Thanks to this interactive tool, you too can do this at home. Click anywhere in the picture, and the red dot will move. The sliding bar displays the resulting correlation coefficient. The grey interval are non-significant values: place the red dot right to get a significant result.

Data are generated from two standard independent gaussian (N=15). Test values are from the asymptotic Fisher transformation test that's on Wikipedia (two-sided, alpha = 5%). Code: R and d3.js.

adammark

var Stars = function (props) {
  var rating = props.rating || 0;   // rating from 0 to 5, inclusive, in increments of 0.5
  var label = props.label || null;  // a label to describe the contents (for accessibility)
  var src = "./img/stars_" + rating + ".svg";

  return <img src={src} width="78" height="13" aria-label={label} data-tooltip={label}/>;
};

module.exports = Stars;