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  • venkat.malladi/tfsee
  • gcrb/tfsee
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analysis/GRO_seq_TFSEE/matrix_analysis.py
View file @ 04af3acb
......@@ -222,6 +222,8 @@ for meme,tom in meme_cell_dict.iteritems():
tomtom_motif_reorder = tomtom_motif.reindex( list(meme_positions.columns.values)).fillna(0)
# dot product
meme_tomtom_cell = meme_positions.dot(tomtom_motif_reorder)
meme_tomtom_cell = np.log10(meme_tomtom_cell+0.01)​
meme_tomtom_cell = np.negative(meme_tomtom_cell)
# Scale and add
scaler = preprocessing.MinMaxScaler()
meme_tomtom_cell_transform = meme_tomtom_cell.T
......
analysis/Histone_TFSEE/matrix_analysis.py
View file @ 04af3acb
......@@ -176,6 +176,8 @@ for meme,tom in meme_cell_dict.iteritems():
tomtom_motif_reorder = tomtom_motif.reindex( list(meme_positions.columns.values)).fillna(0)
# dot product
meme_tomtom_cell = meme_positions.dot(tomtom_motif_reorder)
meme_tomtom_cell = np.log10(meme_tomtom_cell+0.01)​
meme_tomtom_cell = np.negative(meme_tomtom_cell)
# Scale and add
scaler = preprocessing.MinMaxScaler()
meme_tomtom_cell_transform = meme_tomtom_cell.T
......@@ -186,6 +188,7 @@ for meme,tom in meme_cell_dict.iteritems():
meme_tomtom = temp
# Transform meme tom_tom
motif_enhancers = meme_tomtom.T
# Rename column headers
......