<jupyter_start><jupyter_text>The goal of this notebook is to investigate/justify why some samples "look" weird when summing across contigs.<jupyter_code>import matplotlib as mpl
% matplotlib inline

import pandas as pd
import seaborn as sns

from IPython.display import IFrame
import elviz_utils<jupyter_output><empty_output><jupyter_text>Load Data<jupyter_code>reduced = pd.read_csv('../results/reduced_data--all_phylogeny_remains.csv')
sample_info = elviz_utils.read_sample_info('../')
sample_info.head()<jupyter_output><empty_output><jupyter_text>Look into samples that have "too high" of Burkold.See Rep 1 High O2 weeks 8, 10<jupyter_code>IFrame('./plot_copies/160330_Order-Burkholderiales_Methylophilales_Methylococcales--Phylum-Bacteroidetes--rep.pdf', 
       width=800, height=300)
ls "../plots/mixed_phylogeny/"
sample_info[(sample_info['rep'] == 1) & 
            (sample_info['oxy'] == 'High') & 
            (sample_info['week'].isin([8, 10]))]<jupyter_output><empty_output><jupyter_text>Link to Elviz Data for 55_HOW8 (High O2 Rep 1 week 8):http://genome.jgi.doe.gov/viz/plot?jgiProjectId=1056121 ![](./plot_copies/160330_lots_of_Burkholderiales/160330_Burkholderiales_not_highlighted--55_HOW8.png) ![](./plot_copies/160330_lots_of_Burkholderiales/160330_Burkholderiales_highlighted--55_HOW8.png)<jupyter_code>reduced[(reduced['Order']== 'Burkholderiales') &(reduced['ID']=='55_HOW8')]<jupyter_output><empty_output><jupyter_text>Link to Elviz Data for 79_HOW10 (High O2 Rep 1 week 10):http://genome.jgi.doe.gov/viz/plot?jgiProjectId=1056169 ![](./plot_copies/160330_lots_of_Burkholderiales/160330_Burkholderiales_not_highlighted--79_HOW10.png) ![](./plot_copies/160330_lots_of_Burkholderiales/160330_Burkholderiales_highlighted--79_HOW10.png)<jupyter_code>reduced[(reduced['Order']== 'Burkholderiales') &(reduced['ID']=='79_HOW10')]<jupyter_output><empty_output>
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