Alex Reynolds alexpreynolds

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Pug caregiver, curler, cyclist, gardener, beginning French scholar

alexpreynolds / chromCor2.Rscript

Created May 28, 2020 21:33

Compute the Pearson correlation of two BED files (raw text or archived/compressed)

	#! /usr/bin/env Rscript
	# -- mode: R --
	# Above tells emacs to go into R mode for editing (must be second line).

	##
	## chromCor:
	##
	## Compute correlation of two jarched bed files along a chromosome (default chr19).
	##
	## To run this script, turn the execute bit on and run just as any other script file. The Rscript

alexpreynolds / test2.json

Created May 15, 2020 20:24

Categorical multivec example (epilogos-specific)

	{
	"editable" : false,
	"zoomFixed" : false,
	"trackSourceServers" : [
	"/api/v1",
	"http://higlass.io/api/v1"
	],
	"exportViewUrl" : "/api/v1/viewconfs/",
	"views" : [
	{

alexpreynolds / test.json

Last active May 15, 2020 19:35

Categorical multivec viewconf

	{
	"editable": false,
	"zoomFixed": false,
	"trackSourceServers": [
	"/api/v1",
	"http://higlass.io/api/v1"
	],
	"exportViewUrl": "/api/v1/viewconfs/",
	"views": [
	{

alexpreynolds / hidden.json

Created December 15, 2019 19:43

HiGlass test viewconfs for label rendering bug

	{
	"editable" : false,
	"zoomFixed" : false,
	"trackSourceServers" : [
	"/api/v1",
	"http://higlass.io/api/v1"
	],
	"exportViewUrl" : "/api/v1/viewconfs/",
	"views" : [
	{

alexpreynolds / gist:53726f81ff5dcb57fea79b64c9b65a8c

Created September 16, 2019 17:33

Test viewconf (index)

	{
	"editable": false,
	"zoomFixed": false,
	"trackSourceServers": [
	"/api/v1",
	"http://higlass.io/api/v1"
	],
	"exportViewUrl": "/api/v1/viewconfs/",
	"views": [
	{

alexpreynolds / Test viewconf

Created June 14, 2019 01:15

	{
	"editable": false,
	"zoomFixed": false,
	"trackSourceServers": [
	"/api/v1",
	"http://higlass.io/api/v1"
	],
	"exportViewUrl": "/api/v1/viewconfs/",
	"views": [
	{

alexpreynolds / React THREE.js demo

Created March 5, 2019 23:20

Demonstration of possible cubemaker revision basis

	import ReactDOM from 'react-dom'
	import * as THREE from 'three/src/Three'
	import React, { useState, useRef, useMemo } from 'react'
	// A THREE.js React renderer, see: https://github.com/drcmda/react-three-fiber
	import { Canvas, useRender } from 'react-three-fiber'
	// A React animation lib, see: https://github.com/react-spring/react-spring

	import { useSpring, animated } from 'react-spring/three'
	import './styles.css'

alexpreynolds / localPhantomJSTest.js

Created February 18, 2019 08:45

PhantomJS binding SVG export test

	"use strict";

	var url = "http://explorer.altius.org/app/?config=SUFTOi4wT5S79NgyLKPTcg&chr=chr3&start=181500000&stop=181800000";
	//var url = 'http://higlass.io/app';

	var page = require('webpage').create();

	page.viewportSize = {
	width: 1024,
	height: 1280

alexpreynolds / reference_bedmap_make_overlap_figures.Rscript

Created December 22, 2018 07:44

Make figures for BEDOPS `bedmap` documentation

	#!/usr/bin/env Rscript

	args <- commandArgs(TRUE)

	if (length(args) != 3) {
	cat("Usage: reference_bedmap_make_overlap_figure.Rscript map.bed ref.bed figure.pdf\n")
	q(status=-1)
	}
	mapFn <- args[1]
	refFn <- args[2]

alexpreynolds / localSeleniumTestPNG.py

Created October 5, 2018 21:00

Selenium Python binding PNG export test

	#!/usr/bin/env python

	from selenium import webdriver
	from selenium.webdriver.support.ui import WebDriverWait
	from selenium.webdriver.support import expected_conditions as EC
	from selenium.webdriver.common.by import By
	from selenium.common.exceptions import TimeoutException
	import sys
	import time
	import base64