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Minor edits to reading Lee data in datasets.py

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This commit is contained in:
Neil Lawrence 2014-06-04 11:21:25 +01:00
parent dd6f7c1f4c
commit 730e229238
63 changed files with 6761 additions and 5 deletions
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10
GPy/util/datasets.py
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@ -405,11 +405,11 @@ def lee_yeast_ChIP(data_set='lee_yeast_ChIP'):
import zipfile
dir_path = os.path.join(data_path, data_set)
filename = os.path.join(dir_path, 'binding_by_gene.tsv')
X = read_csv(filename, header=1, index_col=0, sep='\t')
transcription_factors = [col for col in X.columns if col[:7] != 'Unnamed']
annotations = X[['Unnamed: 1', 'Unnamed: 2', 'Unnamed: 3']]
X = X[transcription_factors]
return data_details_return({'annotations' : annotations, 'X' : X, 'transcription_factors': transcription_factors}, data_set)
S = read_csv(filename, header=1, index_col=0, sep='\t')
transcription_factors = [col for col in S.columns if col[:7] != 'Unnamed']
annotations = S[['Unnamed: 1', 'Unnamed: 2', 'Unnamed: 3']]
S = S[transcription_factors]
return data_details_return({'annotations' : annotations, 'Y' : S, 'transcription_factors': transcription_factors}, data_set)
def fruitfly_tomancak(data_set='fruitfly_tomancak', gene_number=None):