lipingfangs/Bacteriatool

bacteriatool is a corpus of python script to deal with a lot of problem about bacteria genome analysis. you can use it to manage the data created by resfinder.py(https://bitbucket.org/genomicepidemiology/resfinder.git) to build a csv matrix about the presence of drug resistance genes in different individuals by Resfinder2csv.py. you can use it to manage the data created by toxicity database :VFDB by blast2.7(default output) to build a csv matrix about the presence of drug toxicity genes in different individuals by VFDB2csv.py. you can use it to extract the information like "organism","isolation_source","host","country","lat_lon","collection_date","sample_name" of GBK(GCA) file form NCBI and create a csv matrix of your information.

Python