In [1]:

    

from msdas import *
%pylab inline


    

    




Couldn't import dot_parser, loading of dot files will not be possible.
Populating the interactive namespace from numpy and matplotlib

In [2]:

    

Y = replicates.ReplicatesYeast(get_yeast_raw_data(), verbose=True, cleanup=True)


    

    




INFO:root:Reading /home/cokelaer/Work/github/msdas/share/data/Yeast_all_raw.csv
INFO:root:Renaming psites with ^ character
INFO:root:Replacing zeros with NAs
INFO:root:-- 200 rows have ambiguous psites and are removed
INFO:root:save data in attribute _ambiguous_psites_df
INFO:root:--------------------------------------------------
INFO:root:-- Removing 125 rows with ambigous protein names:
INFO:root:--------------------------------------------------
WARNING:root:Rebuilding identifier in the dataframe. MERGED prefixes will be lost
WARNING:root:Identifiers are not unique. Have you called merge_peptides() ?

In [3]:

    

Ymerged = Y.copy()


    

In [4]:

    

Ymerged.drop_oxidation()


    

In [5]:

    

Ymerged.drop_na_exceeds_minnonzero()
Ymerged.merge_peptides()


    

In [6]:

    

imshow(Y.df.corr())
colorbar()


    

    
Out[6]:





<matplotlib.colorbar.Colorbar instance at 0x7be6f38>






    

In [7]:

    

imshow(Ymerged.df.corr())
colorbar()


    

    
Out[7]:





<matplotlib.colorbar.Colorbar instance at 0x8f428c0>






    

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