thirdknife

<my-communities>
    <h1 class="caddy__heading">
        <a href="#">
            Communities
        </a>
        <a href="javascript:;" class="minimise-community-list-parent">
            <i class="minimise-community-list"></i>
        </a>
    </h1>
    <ul class="caddy__list user-communities-list">

thirdknife

#!/bin/bash
# My first script

# make sure you always put $f in double quotes to avoid any nasty surprises i.e. "$f"
for f in ~/Desktop/dsg1_1000Genome/1000Genome_dsg1/1000Genome_dsg1/*
do
	echo "Processing $f file..."
	mv $f $f".vcf"
	bgzip $f".vcf"
	cat ~/Desktop/dsg1_1000Genome/arch_dsg1.fasta | perl vcf-consensus -s $f $f".vcf.gz" > $f".fa"

thirdknife

<?php
require_once(APPPATH.'/libraries/REST_Controller.php');
require_once(APPPATH . '/libraries/TSBAuth.php');
require_once(APPPATH . '/libraries/DeviceDetect.php');

class Messages extends REST_Controller {
    var $requestUser = null;
    public static $DEVICE  ;
    function __construct() {
        parent::__construct();

thirdknife

/**
 * INTERACTIVE CHROMOSOME VISUALIZATION
 * opt : initialization options object
 *  + target: REQUIRED
 *  + segment: REQUIRED
 *
 *
 */

var d3 = require("d3");

thirdknife

[{"ChrLocation":"p","MemberName":"VAMP1"},{"ChrLocation":"p11.23","MemberName":"KCNJ8"},{"ChrLocation":"p13.31","MemberName":"ING4"},{"ChrLocation":"q","MemberName":"SLC38A2"},{"ChrLocation":"q","MemberName":"PLEKHA9"},{"ChrLocation":"q","MemberName":"CHST11"},{"ChrLocation":"q","MemberName":"SOCS2"},{"ChrLocation":"q11","MemberName":"ITGA5"},{"ChrLocation":"q12","MemberName":"ACCN2"},{"ChrLocation":"q12","MemberName":"RND1"},{"ChrLocation":"q12","MemberName":"PRKAG1"},{"ChrLocation":"q12","MemberName":"DHH"},{"ChrLocation":"q13","MemberName":"ITGA7"},{"ChrLocation":"q13","MemberName":"CDK2"},{"ChrLocation":"q13","MemberName":"PDE1B"},{"ChrLocation":"q13","MemberName":"SLC38A4"},{"ChrLocation":"q13","MemberName":"CACNB3"},{"ChrLocation":"q13","MemberName":"KCNH3"},{"ChrLocation":"q13","MemberName":"MYO1A"},{"ChrLocation":"q13","MemberName":"ZNFN1A4"},{"ChrLocation":"q13","MemberName":"NFE2"},{"ChrLocation":"q13","MemberName":"IGFBP6"},{"ChrLocation":"q13","MemberName":"ERBB3"},{"ChrLocation":"q13","MemberName

thirdknife

{"[\"p\"]":[{"ChrLocation":"p","MemberName":"VAMP1"}],"[\"p11.23\"]":[{"ChrLocation":"p11.23","MemberName":"KCNJ8"}],"[\"p13.31\"]":[{"ChrLocation":"p13.31","MemberName":"ING4"}],"[\"q\"]":[{"ChrLocation":"q","MemberName":"SLC38A2"},{"ChrLocation":"q","MemberName":"PLEKHA9"},{"ChrLocation":"q","MemberName":"CHST11"},{"ChrLocation":"q","MemberName":"SOCS2"}],"[\"q11\"]":[{"ChrLocation":"q11","MemberName":"ITGA5"}],"[\"q12\"]":[{"ChrLocation":"q12","MemberName":"ACCN2"},{"ChrLocation":"q12","MemberName":"RND1"},{"ChrLocation":"q12","MemberName":"PRKAG1"},{"ChrLocation":"q12","MemberName":"DHH"}],"[\"q13\"]":[{"ChrLocation":"q13","MemberName":"ITGA7"},{"ChrLocation":"q13","MemberName":"CDK2"},{"ChrLocation":"q13","MemberName":"PDE1B"},{"ChrLocation":"q13","MemberName":"SLC38A4"},{"ChrLocation":"q13","MemberName":"CACNB3"},{"ChrLocation":"q13","MemberName":"KCNH3"},{"ChrLocation":"q13","MemberName":"MYO1A"},{"ChrLocation":"q13","MemberName":"ZNFN1A4"},{"ChrLocation":"q13","MemberName":"NFE2"},{"ChrLocation":"q13"

thirdknife

./1.fasta:3:GATCTCCGACGAGGCCCTGGACCCCCGGGCGGCGAAGCTGCGGCGCGGCGCCCCCTGGAGGCCGCGGGACCCCTG
./1.fasta:4:GCCGGTCCGCGCAGGCGCAGCGGGGTCGCAGGGCGCGGCGGGTTCCAGCGCGGGGATGGCGCTGTCCGCGGAGGA
./1.fasta:5:CCGGGCGCTGGTGCGCGCCCTGTGGAAGAAGCTGGGCAGCAACGTCGGCGTCTACACGACAGAGGCCCTGGAAAG
./1.fasta:10:CCGTGCTGGGCCCCTGTCCCCGGGAGGGCCCCGGCGGGGTGGGTGCGGGGGGCGTGCGGGGCGGGTGCAGGCGAG
./1.fasta:12:TCAGCCCCGCGCTGCAGGCGTCGCTGGACAAGTTCCTGAGCCACGTTATCTCGGCGCTGGTTTCCGAGTACCGCT
./1.fasta:13:GAACTGTGGGTGGGTGGCCGCGGGATCCCCAGGCGACCTTCCCCGTGTTTGAGTAAAGCCTCTCCCAGGAGCAGC
./2.fasta:6:GAGAGGAGGGAAGAGCAAGCTGCCCGAGACGCAGGGGAAGGAGGATGAGGGCCCTGGGGATGAGCTGGGGTGAAC
./2.fasta:11:GTGAGAGAAAAGGCAGAGCTGGGCCAAGGCCCTGCCTCTCCGGGATGGTCTGTGGGGGAGCTGCAGCAGGGAGTG
./2.fasta:13:AGGGATGGGCATTTTGCACGGGGGCTGATGCCACCACGTCGGGTGTCTCAGAGCCCCAGTCCCCTACCCGGATCC
./2.fasta:15:GGCCTATCGGCGCTTCTACGGCCCGGTCTAGGGTGTCGCTCTGCTGGCCTGGCCGGCAACCCCAGTTCTGCTCCT

thirdknife

CCACTGCACTCACCGCACCCGGCCAATTTTTGTGTTTTTAGTAGAGACTAAATACCATATAGTGAACACCTAAGA
CGGGGGGCCTTGGATCCAGGGCGATTCAGAGGGCCCCGGTCGGAGCTGTCGGAGATTGAGCGCGCGCGGTCCCGG
GATCTCCGACGAGGCCCTGGACCCCCGGGCGGCGAAGCTGCGGCGCGGCGCCCCCTGGAGGCCGCGGGACCCCTG
GCCGGTCCGCGCAGGCGCAGCGGGGTCGCAGGGCGCGGCGGGTTCCAGCGCGGGGATGGCGCTGTCCGCGGAGGA
CCGGGCGCTGGTGCGCGCCCTGTGGAAGAAGCTGGGCAGCAACGTCGGCGTCTACACGACAGAGGCCCTGGAAAG
GTGCGGCAGGCTGGGCGCCCCCGCCCCCAGGGGCCCTCCCTCCCCAAGCCCCCCGGACGCGCCTCACCCACGTTC
CTCTCGCAGGACCTTCCTGGCTTTCCCCGCCACGAAGACCTACTTCTCCCACCTGGACCTGAGCCCCGGCTCCTC
ACAAGTCAGAGCCCACGGCCAGAAGGTGGCGGACGCGCTGAGCCTCGCCGTGGAGCGCCTGGACGACCTACCCCA
CGCGCTGTCCGCGCTGAGCCACCTGCACGCGTGCCAGCTGCGAGTGGACCCGGCCAGCTTCCAGGTGAGCGGCTG
CCGTGCTGGGCCCCTGTCCCCGGGAGGGCCCCGGCGGGGTGGGTGCGGGGGGCGTGCGGGGCGGGTGCAGGCGAG

thirdknife

1.fasta 3  GATCTCCGACGAGGCCCTGGACCCCCGGGCGGCGAAGCTGCGGCGCGGCGCCCCCTGGAGGCCGCGGGACCCCTG
1.fasta 4  GCCGGTCCGCGCAGGCGCAGCGGGGTCGCAGGGCGCGGCGGGTTCCAGCGCGGGGATGGCGCTGTCCGCGGAGGA
1.fasta 5  CCGGGCGCTGGTGCGCGCCCTGTGGAAGAAGCTGGGCAGCAACGTCGGCGTCTACACGACAGAGGCCCTGGAAAG
1.fasta 10  CCGTGCTGGGCCCCTGTCCCCGGGAGGGCCCCGGCGGGGTGGGTGCGGGGGGCGTGCGGGGCGGGTGCAGGCGAG
1.fasta 12  TCAGCCCCGCGCTGCAGGCGTCGCTGGACAAGTTCCTGAGCCACGTTATCTCGGCGCTGGTTTCCGAGTACCGCT
1.fasta 13  GAACTGTGGGTGGGTGGCCGCGGGATCCCCAGGCGACCTTCCCCGTGTTTGAGTAAAGCCTCTCCCAGGAGCAGC
2.fasta 20  GAGAGGAGGGAAGAGCAAGCTGCCCGAGACGCAGGGGAAGGAGGATGAGGGCCCTGGGGATGAGCTGGGGTGAAC
2.fasta 25  GTGAGAGAAAAGGCAGAGCTGGGCCAAGGCCCTGCCTCTCCGGGATGGTCTGTGGGGGAGCTGCAGCAGGGAGTG
2.fasta 27  AGGGATGGGCATTTTGCACGGGGGCTGATGCCACCACGTCGGGTGTCTCAGAGCCCCAGTCCCCTACCCGGATCC
2.fasta 29  GGCCTATCGGCGCTTCTACGGCCCGGTCTAGGGTGTCGCTCTGCTGGCCTGGCCGGCAACCCCAGTTCTGCTCCT

thirdknife

#!/usr/bin/awk -f
BEGIN {
        OFS="*";
        split(pats, a, "|")
}
{
        pats=""
        for (e in a) {
                if (match($0, a[e])) {
                        pats=(pats?pats":":"") substr($0,RSTART,RLENGTH)