diff --git a/2016-python.ipynb b/2016-python.ipynb index b454d2d..2b0606c 100644 --- a/2016-python.ipynb +++ b/2016-python.ipynb @@ -55,9 +55,7 @@ { "cell_type": "code", "execution_count": 1, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -81,9 +79,7 @@ { "cell_type": "code", "execution_count": 10, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "ename": "SyntaxError", @@ -114,7 +110,6 @@ "cell_type": "code", "execution_count": 3, "metadata": { - "collapsed": false, "scrolled": true }, "outputs": [ @@ -147,9 +142,7 @@ { "cell_type": "code", "execution_count": 4, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -174,9 +167,7 @@ { "cell_type": "code", "execution_count": 5, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -201,9 +192,7 @@ { "cell_type": "code", "execution_count": 6, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -241,9 +230,7 @@ { "cell_type": "code", "execution_count": 7, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -269,9 +256,7 @@ { "cell_type": "code", "execution_count": 8, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -298,9 +283,7 @@ { "cell_type": "code", "execution_count": 9, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -345,9 +328,7 @@ { "cell_type": "code", "execution_count": 10, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -372,9 +353,7 @@ { "cell_type": "code", "execution_count": 11, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -402,9 +381,7 @@ { "cell_type": "code", "execution_count": 12, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -430,9 +407,7 @@ { "cell_type": "code", "execution_count": 13, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -466,9 +441,7 @@ { "cell_type": "code", "execution_count": 14, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -509,9 +482,7 @@ { "cell_type": "code", "execution_count": 15, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -538,9 +509,7 @@ { "cell_type": "code", "execution_count": 16, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -566,9 +535,7 @@ { "cell_type": "code", "execution_count": 17, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [], "source": [ "x = y = 'pencil'" @@ -577,9 +544,7 @@ { "cell_type": "code", "execution_count": 18, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -603,9 +568,7 @@ { "cell_type": "code", "execution_count": 19, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -630,9 +593,7 @@ { "cell_type": "code", "execution_count": 20, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -698,9 +659,7 @@ { "cell_type": "code", "execution_count": 22, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -738,9 +697,7 @@ { "cell_type": "code", "execution_count": 24, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -764,9 +721,7 @@ { "cell_type": "code", "execution_count": 11, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "ename": "NameError", @@ -787,9 +742,7 @@ { "cell_type": "code", "execution_count": 27, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -838,9 +791,7 @@ { "cell_type": "code", "execution_count": 28, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -882,9 +833,7 @@ { "cell_type": "code", "execution_count": 29, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -922,9 +871,7 @@ { "cell_type": "code", "execution_count": 30, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -955,9 +902,7 @@ { "cell_type": "code", "execution_count": 31, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -991,9 +936,7 @@ { "cell_type": "code", "execution_count": 32, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1048,9 +991,7 @@ { "cell_type": "code", "execution_count": 13, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1075,9 +1016,7 @@ { "cell_type": "code", "execution_count": 14, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1101,9 +1040,7 @@ { "cell_type": "code", "execution_count": 15, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1128,9 +1065,7 @@ { "cell_type": "code", "execution_count": 18, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1155,9 +1090,7 @@ { "cell_type": "code", "execution_count": 19, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1185,9 +1118,7 @@ { "cell_type": "code", "execution_count": 20, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1248,9 +1179,7 @@ { "cell_type": "code", "execution_count": 40, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1286,9 +1215,7 @@ { "cell_type": "code", "execution_count": 42, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1312,9 +1239,7 @@ { "cell_type": "code", "execution_count": 43, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1351,9 +1276,7 @@ { "cell_type": "code", "execution_count": 44, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1392,9 +1315,7 @@ { "cell_type": "code", "execution_count": 46, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1418,9 +1339,7 @@ { "cell_type": "code", "execution_count": 47, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1447,9 +1366,7 @@ { "cell_type": "code", "execution_count": 48, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1467,9 +1384,7 @@ { "cell_type": "code", "execution_count": 50, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [], "source": [ "sequence_types[1] = 'dna'" @@ -1498,9 +1413,7 @@ { "cell_type": "code", "execution_count": 51, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1538,9 +1451,7 @@ { "cell_type": "code", "execution_count": 52, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1576,9 +1487,7 @@ { "cell_type": "code", "execution_count": 53, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1610,9 +1519,7 @@ { "cell_type": "code", "execution_count": 54, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1665,9 +1572,7 @@ { "cell_type": "code", "execution_count": 55, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1691,9 +1596,7 @@ { "cell_type": "code", "execution_count": 56, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1717,9 +1620,7 @@ { "cell_type": "code", "execution_count": 57, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1745,9 +1646,7 @@ { "cell_type": "code", "execution_count": 58, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1781,23 +1680,21 @@ }, { "cell_type": "code", - "execution_count": 59, - "metadata": { - "collapsed": false - }, + "execution_count": 1, + "metadata": {}, "outputs": [ { "name": "stdout", "output_type": "stream", "text": [ - "['bananas', 'apples', 'oranges']\n" + "['rna', 'dna', 'protein']\n" ] } ], "source": [ - "fruits = 'bananas apples oranges' #This order is important for sorting later\n", - "fruit_list = fruits.split()\n", - "print fruit_list" + "seqs = 'rna dna protein' #This order is important for sorting later\n", + "seqs_list = seqs.split()\n", + "print seqs_list" ] }, { @@ -1817,9 +1714,7 @@ { "cell_type": "code", "execution_count": 60, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1887,9 +1782,7 @@ { "cell_type": "code", "execution_count": 62, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1914,9 +1807,7 @@ { "cell_type": "code", "execution_count": 63, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -1981,9 +1872,7 @@ { "cell_type": "code", "execution_count": 65, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2000,9 +1889,7 @@ { "cell_type": "code", "execution_count": 66, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2028,9 +1915,7 @@ { "cell_type": "code", "execution_count": 67, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2073,9 +1958,7 @@ { "cell_type": "code", "execution_count": 69, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2131,9 +2014,7 @@ { "cell_type": "code", "execution_count": 71, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2153,9 +2034,7 @@ { "cell_type": "code", "execution_count": 72, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2195,9 +2074,7 @@ { "cell_type": "code", "execution_count": 74, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2258,9 +2135,7 @@ { "cell_type": "code", "execution_count": 77, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2302,9 +2177,7 @@ { "cell_type": "code", "execution_count": 78, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2357,9 +2230,7 @@ { "cell_type": "code", "execution_count": 80, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2376,9 +2247,7 @@ { "cell_type": "code", "execution_count": 81, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2423,9 +2292,7 @@ { "cell_type": "code", "execution_count": 5, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2454,9 +2321,7 @@ { "cell_type": "code", "execution_count": 6, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2487,9 +2352,7 @@ { "cell_type": "code", "execution_count": 7, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2636,9 +2499,7 @@ { "cell_type": "code", "execution_count": 86, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2655,9 +2516,7 @@ { "cell_type": "code", "execution_count": 87, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2677,9 +2536,7 @@ { "cell_type": "code", "execution_count": 88, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [], "source": [ "orchids = read_fasta_dict('ls_orchid.fasta')" @@ -2688,9 +2545,7 @@ { "cell_type": "code", "execution_count": 89, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [], "source": [ "lengths, gc_contents = list(), list()\n", @@ -2702,9 +2557,7 @@ { "cell_type": "code", "execution_count": 1, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "name": "stdout", @@ -2834,9 +2687,7 @@ { "cell_type": "code", "execution_count": 93, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2869,9 +2720,7 @@ { "cell_type": "code", "execution_count": 94, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [], "source": [ "%matplotlib inline" @@ -2880,9 +2729,7 @@ { "cell_type": "code", "execution_count": 95, - "metadata": { - "collapsed": false - }, + "metadata": {}, "outputs": [ { "data": { @@ -2939,9 +2786,9 @@ "name": "python", "nbconvert_exporter": "python", "pygments_lexer": "ipython2", - "version": "2.7.10" + "version": "2.7.14" } }, "nbformat": 4, - "nbformat_minor": 0 + "nbformat_minor": 1 }