CatG-cookbook

Scripts in this thesis were used to achive 2 things:

1. Compare the performance of API vs Web scraping for the KEGG databases:

• blast_result_format.py was used to format old thesis data depending on requirements.
• agilent text data / final_blast_Table was used to retrieve primary acession assigned to the probes
• getWebsiteInfoPartial.py was used to select the link and then scrape data from the KEGG result page
• keggAPI.py was used to select the link call the KEGG API
• beautifulSoup.py was used to retrieve SiganlP data based on the results of the KEGG (either scrape of api )
• result formatting scripts are not included in here

2. Creating an information matching tool (CatG) which would map the microarray file with the relevant potencial Ecs gene (old thesis data ) and retrieved information on the potencial ECs gene - SignalP.

• dataProcess.py - script which matches files together
• CatG.py - CatG GUI script
• setup.py - script used to convert CatG.py into an exe

P.S This project used phantomJS which is no longer mentained.