idot

## Prepare data to plot in Euler Grid.
## Quantity or binary table with columns for samples and rows for features



#### FUNCTIONS #######


## convert a (table, matrix,) data.frame to either 0/1 or FALSE/TRUE based on whether values exceed threshold.
## to invert a threshold use: new.table <- table == FALSE

idot

### Keybase proof

I hereby claim:

  * I am idot on github.
  * I am idotamir (https://keybase.io/idotamir) on keybase.
  * I have a public key whose fingerprint is CAB5 4E68 808E 591E 4F62  E3BE 0271 0975 3DDF F04E

To claim this, I am signing this object:

idot

#!/bin/sh

cd `dirname $0`
python -ES ./importer/importer.py universe_wsgi.ini $@

idot

class InputActor(latch: CountDownLatch, outputStream : OutputStream) extends Actor {
	private val log = LoggerFactory getLogger(Popen getClass)
	private val writer = new PrintWriter(outputStream)

	def act(){
         react{
             case null => {
                ControlUtil.closeInsulated(writer)
                latch.countDown

idot

<display id="igb_bed" version="1.0.0" name="display in ">
    <link id="igb_bed" name="IGB">
        <url>http://localhost:7085/UnibrowControl?version=${buildversion}&amp;${position}&amp;loadresidues=false&amp;feature_url_0=${bed_file.url}&amp;sym_name_0=${thenicename}&amp;sym_method_0=${bed_file.url}&amp;sym_bg_0=0xFFFFFF&amp;graph_show_label_0=true&amp;graph_show_axis_0=true&amp;graph_minvis_0=0.0&amp;graph_maxvis_0=100&amp;graph_float_0=false&amp;graph_style_0=Bar&amp;query_url=${bed_file.url}&amp;server_url=galaxy</url>
        <param type="data" name="bed_file_for_name" viewable="False"/>
	<param type="template" name="thenicename" viewable="False" strip="True">
#import re
#set nm=$bed_file_for_name.name
${re.sub('\W',"_",nm)}
	</param>
	<param type="data" name="bed_file" url="${thenicename}_${DATASET_HASH}.bed" strip_https="True" />

idot

#similar to brentp http://biostar.stackexchange.com/questions/4885/installation-of-tophat-1-1-4
* in samtools download mkdir lib include/bam bin
* cp libbam.a lib; *.h include/bam ; samtools bin

tophat:
./configure --with-bam=/path/to/samtools/samtools-0.1.13 --prefix /path/to/tophat/checkout/tophat/tophat.git

make && make install

will create tophat binaries in tophat.git/bin

idot

#!/usr/bin/env python
#
# Copyright (c) 2007, Hans Meine <hans_meine@gmx.net>
#  All rights reserved.
#
# This is licensed according to the new BSD license.
# Please send patches / comments, I would be happy about any feedback.
#
# Redistribution and use in source and binary forms, with or without
# modification, are permitted provided that the following conditions

idot

#!/usr/bin/env python

def toIllu(c):
    """returns the 1.5 value of phred+33
    >>> [toIllu(ord(n)) for n in["!",'"',"#","$","H","I","J"]] 
    ['B', 'B', 'B', 'C', 'g', 'h', 'h']
    """
    if c < 36:
       return "B"
    elif c > 73:

idot

import scala.collection.mutable.ListBuffer
import akka.actor.{Actor,ActorRef}
import akka.actor.Actor._
import akka.routing.{ Listeners, Listen }

//Represents a domain event
trait Event

//A builder to create domain entities
trait EntityBuilder[Entity] {

idot

//////////////////////////////////////
/// Grid Directive to Angular 1.0.2
//////////////////////////////////////

// To use:
//    <script>
//        var app = angular.module('myapp', ['ngGrid']);
//        var Ctrl = function($scope) { $scope.todos = [...] }
//    </script>
//    <div ng-app="myapp">