wckdouglas

#include <string.h>
#include <cstring>
#include <iostream>
#include <fstream>
#include <gzstream.h>
#include <sstream>

using namespace std;
//get the id hash table and 
//iterate over the fastq file

wckdouglas

#!/usr/bin/env Rscript

source("http://bioconductor.org/biocLite.R")
packages <- c('data.table','readr',
			  'dplyr','plyr',
			  'ggplot2','cowplot',
			  'caret','RMySQL',
			  'tidyr','stringr',
			  'pheatmap','Rcpp')

wckdouglas

# change prefix
unbind-key C-b
set -g  prefix C-a
bind-key C-a send-prefix
#set -g default-terminal "xterm"
#set-window-option -g xterm-keys on
#set-option -g renumber-windows on

#power line
run-shell "powerline-daemon -q"

wckdouglas

#!/bin/env python

import commands
import glob
import time
import os
import sys

maxJobLim = 46
joblist = glob.glob('./job_*.sge')

wckdouglas

import sys
import os
import fileinput

#==============================set parameter===================
time='1:30:00' 
allocation = '{Allocation-name}' 
projectPrerfix = '{name for the job}'
commandPerJob = 1

wckdouglas

#!/bin/snv Rscript

installPackages <- function(package){
    if(package %in% rownames(installed.packages()) == FALSE)
    {
        message('Installing ',package)
        install.packages(package, dependencies=TRUE)
    }else{
        message(package,' is installed')
    }

wckdouglas

#!/bin/env python

from multiprocessing import Pool, Manager
import numpy as np

def tryFunc(i, j,results):
    results.append(i*j)

def main():
    a = 10

wckdouglas

#/usr/bin/env python

from Bio import SeqIO
import sys

def guessFileType(filename):
    if filename.endswith('fasta') or filename.endswith('fa'):
        fileType = 'fasta'
    elif filename.endswith('fastq') or filename.endswith('fq'):
        fileType = 'fastq'

wckdouglas

#!/bin/bash

# Script for installing tmux on systems where you don't have root access.
# tmux will be installed in $INSTALLPATH/local/bin.
# It's assumed that wget and a C/C++ compiler are installed.

# exit on error
set -e

INSTALLPATH=$(pwd)

wckdouglas

{
"mapQuality": ">10",
"isMapped" : "true",
"isMateMapped": "true",
"isPrimaryAlignment": "true",
"isProperPair": "true"
}