ocb,ibpa

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README.md issues

Example links are not attached to gene annotation file and output file.
Citation when available
Validating compendium links.
Acknowledgements when available.

Validation.md issues

I saw it says "there are 2 supervised approaches", but I only see the instruction for one supervised approach.

IndexError for `supervised_validation_knowledge_capture_script.py`

(ocb) lfz@barbera:~/OCB/TranscriptomicPipelines$ python supervised_validation_knowledge_capture_script.py SalmonellaExample ../TestFiles/Input_KnowledgeCapture_fur.csv ../TestFiles/Input_KnowledgeCapture_fur_related_genes.csv 
Trial : 0
Trial : 1
Trial : 2
Trial : 3
Trial : 4
Trial : 5
Trial : 6
Trial : 7
Trial : 8
Trial : 9
Traceback (most recent call last):
  File "supervised_validation_knowledge_capture_script.py", line 34, in <module>
    transcriptomic_pipeline.validation_pipeline.supervised_validation.knowledge_capture_validation(knowledge_capture_sample, knowledge_capture_gene)
  File "/share/taglab/Fang/OCB/TranscriptomicPipelines/validation/supervised.py", line 283, in knowledge_capture_validation
    ax.plot(final_results[col],final_results.index,linewidth=1,label=str(col) + ", p-val = " + str(p_val_kstest))
  File "/share/taglab/Fang/.local/lib/python3.6/site-packages/matplotlib/__init__.py", line 1810, in inner
    return func(ax, *args, **kwargs)
  File "/share/taglab/Fang/.local/lib/python3.6/site-packages/matplotlib/axes/_axes.py", line 1611, in plot
    for line in self._get_lines(*args, **kwargs):
  File "/share/taglab/Fang/.local/lib/python3.6/site-packages/matplotlib/axes/_base.py", line 393, in _grab_next_args
    yield from self._plot_args(this, kwargs)
  File "/share/taglab/Fang/.local/lib/python3.6/site-packages/matplotlib/axes/_base.py", line 378, in _plot_args
    ncx, ncy = x.shape[1], y.shape[1]
IndexError: tuple index out of range

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