dialtone

import re
import sys
import csv
import json
import urllib2

from datetime import datetime

from collections import defaultdict as dd

wouterj

How to use Jekyll, Plugins and Sass on GitHub Pages

Jekyll is a great CMS for developers and GitHub Pages is a great host to store your Jekyll sites. There is just one problem, GitHub runs Jekyll in safe mode, which means you can't use plugins. One thing you can do is building the Jekyll website locally and then push to GitHub.

Alexandre Rademaker found a solution to do this easially, which is quite usefull: "GitHub Pages and Jekyll plugins" After reading this I thought, that can be done easier!

Aliases to rescue

Git provides a way to have aliases of bash commands. You can do this by adding items to the alias key of your configuration. For this, you can add this locally by adding this lines to your %PROJECT_ROOT%/.git/config file:

ngehlenborg

var hexToRgba = function( hexString, alpha ) {
  alpha = alpha || 1;
  var hexColor = parseInt( hexString.substring(1), 16 );
  
  return ( 'rgba(' + ( ( hexColor << 8 ) >>> 24 ) + ',' + ( ( hexColor << 16 ) >>> 24 ) + ',' + ( ( hexColor << 24 ) >>> 24 ) + ',' + alpha + ')' );
}

JakeConway

require(jsonlite)
require(curl)

#An example of the function input. 
#Specify the project name, fields, and number of entries(size) to pull in each list

data <- list(list(project = "THCA-US", fields = c("id", "mutation", "chromosome", "start", "end"), size = 6659),
             list(project = "THCA-SA", fields = c("id", "mutation", "chromosome", "start", "end"), size = 45126),
             list(project = "LUSC-US", fields = c("id", "mutation", "chromosome", "start", "end"), size = 65063),
             list(project = "LUSC-KR", fields = c("id", "mutation", "chromosome", "start", "end"), size = 64671),

ngehlenborg

require(RISmed);
require(ggplot2);

makeJournalQuery <- function( journals ) {
  query <- paste( "(" , paste( "\"", journals, "\"[Journal]", sep="", collapse=" OR " ), ")", sep="" );

    return ( query );
}

queryPapers <- function( year, query, journals ) {

flekschas

{
  "fgm": {
    "fragmentsServer": "//higlass.io/api/v1/",
    "fragmentsPrecision": 2,
    "fragmentsNoBalance": true,
    "fragmentsDims": 60,
    "fragmentsBaseRes": 1000,
    "fragments": [
      ["chrom1", "start1", "end1", "strand1", "chrom2", "start2", "end2", "strand2", "dataset", "zoomOutLevel", "cell-line"],
      ["chr1", 0, 1, "coding", "chr2", 0, 1, "coding", "CQMd6V_cRw6iCI_-Unl3PQ", 6, "GM12878"],

flekschas

{
  "fgm": {
    "fragmentsServer": "//higlass.io/api/v1/",
    "fragmentsPrecision": 2,
    "fragmentsDims": 60,
    "fragmentsPadding": 50,
    "fragmentsBaseRes": 1000,
    "fragmentsPercentile": 99,
    "fragmentsIgnoreDiags": 1,
    "fragments": [