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Week04 #106

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Week04 #106

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fd2137a
week04 class
yanliang1993 Feb 4, 2016
62d9812
week04 class1
yanliang1993 Feb 9, 2016
356c34e
week04-conflict
yanliang1993 Feb 9, 2016
0d5b49a
class
yanliang1993 Feb 13, 2016
3fb3c38
hw4
yanliang1993 Feb 13, 2016
6918e94
downloading data from geo
yanliang1993 Feb 13, 2016
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23 changes: 17 additions & 6 deletions weeks/week04/0_alignment_expression_quantification.ipynb
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Original file line number Diff line number Diff line change
Expand Up @@ -324,7 +324,7 @@
},
{
"cell_type": "code",
"execution_count": null,
"execution_count": 1,
"metadata": {
"collapsed": false,
"deletable": false,
Expand All @@ -336,7 +336,18 @@
"solution": false
}
},
"outputs": [],
"outputs": [
{
"data": {
"text/plain": [
"33"
]
},
"execution_count": 1,
"metadata": {},
"output_type": "execute_result"
}
],
"source": [
"ord('!')"
]
Expand Down Expand Up @@ -384,7 +395,7 @@
}
],
"source": [
"10**(-(ord(\"A\") - ord(\"!\"))/10)"
"10**(-(ord('A')-33)/10)"
]
},
{
Expand Down Expand Up @@ -505,7 +516,7 @@
}
},
"source": [
"YOUR ANSWER HERE"
"We can use the \"basic\" annotation when only interested in full length protein coding transcripts instead of those partial or non-protein coding transcripts. "
]
},
{
Expand Down Expand Up @@ -968,7 +979,7 @@
}
},
"source": [
"YOUR ANSWER HERE"
"abundance.txt"
]
},
{
Expand Down Expand Up @@ -1114,7 +1125,7 @@
}
},
"source": [
"YOUR ANSWER HERE"
"a10_featureCounts.txt includes gene ID, chromosome, start site, end site, strand and length of each feature, while kallisto/abundance.tsv includes the ID, length, estimated counts and TPM of each transcripts. "
]
},
{
Expand Down
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