{ "cells": [ { "cell_type": "markdown", "metadata": {}, "source": [ "#WT line specific mutations\n", "\n", "---\n", "\n", "\n", "##First calculate WT, and all other mean reference frequencies, to see the WT specific mutations\n", "- WT specific heterozygote mutations have around 50% reference base count in WT samples, and around 100% in non WT samples. So the average reference base frequency among WT samples is around 50%, and around 100% among non WT samples. To see these mutations I will plot almost all positions on an (average other samples refbase freq, average WT refbase freq ) plane. WT specific mutations are expected to be in the middle right (1,0.5), and are expected to be clearly separated from other positions.\n" ] }, { "cell_type": "code", "execution_count": 1, "metadata": { "collapsed": false }, "outputs": [ { "data": { "text/html": [ "\n", "
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