hw3_overlap_all.ipynb

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   "source": [
    "# This function is given in the assignment\n",
    "from overlap import overlap\n",
    "\n",
    "# This is the function you should implement\n",
    "from overlap_all_pairs import overlap_all_pairs"
   ]
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   "source": [
    "### Example 1"
   ]
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   "outputs": [],
   "source": [
    "reads = ['ABCDEFG', 'EFGHIJ', 'HIJABC']"
   ]
  },
  {
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   "execution_count": 3,
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     "data": {
      "text/plain": [
       "[('ABCDEFG', 'EFGHIJ'), ('EFGHIJ', 'HIJABC'), ('HIJABC', 'ABCDEFG')]"
      ]
     },
     "execution_count": 3,
     "metadata": {},
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   "source": [
    "overlap_all_pairs(reads, 3)"
   ]
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       "[]"
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     "execution_count": 4,
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   "source": [
    "overlap_all_pairs(reads, 4)"
   ]
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   "source": [
    "### Example 2"
   ]
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   "cell_type": "code",
   "execution_count": 5,
   "metadata": {
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   "outputs": [],
   "source": [
    "reads = ['CGTACG', 'TACGTA', 'GTACGT', 'ACGTAC', 'GTACGA', 'TACGAT']"
   ]
  },
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   "cell_type": "code",
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      "text/plain": [
       "[('CGTACG', 'TACGTA'),\n",
       " ('CGTACG', 'GTACGT'),\n",
       " ('CGTACG', 'GTACGA'),\n",
       " ('CGTACG', 'TACGAT'),\n",
       " ('TACGTA', 'ACGTAC'),\n",
       " ('TACGTA', 'CGTACG'),\n",
       " ('GTACGT', 'TACGTA'),\n",
       " ('GTACGT', 'ACGTAC'),\n",
       " ('ACGTAC', 'GTACGA'),\n",
       " ('ACGTAC', 'GTACGT'),\n",
       " ('ACGTAC', 'CGTACG'),\n",
       " ('GTACGA', 'TACGAT')]"
      ]
     },
     "execution_count": 6,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "overlap_all_pairs(reads, 4)"
   ]
  },
  {
   "cell_type": "code",
   "execution_count": 7,
   "metadata": {
    "collapsed": false
   },
   "outputs": [
    {
     "data": {
      "text/plain": [
       "[('CGTACG', 'GTACGT'),\n",
       " ('CGTACG', 'GTACGA'),\n",
       " ('TACGTA', 'ACGTAC'),\n",
       " ('GTACGT', 'TACGTA'),\n",
       " ('ACGTAC', 'CGTACG'),\n",
       " ('GTACGA', 'TACGAT')]"
      ]
     },
     "execution_count": 7,
     "metadata": {},
     "output_type": "execute_result"
    }
   ],
   "source": [
    "overlap_all_pairs(reads, 5)"
   ]
  }
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