I have an advice to ask. I have a collection of alignments, of which I want to know if the mismatches found in the reads when comparing with the reference sequence (genome) are due to an SNV. I have all the SNV's noted down and stored per chromosome in python dictionaries. However, the process of loading the dictionary (cPickle) for the current chromosome dictionary being researched takes a long time. Do you have any suggestions on how to make this process faster in the python, to look up a position on the chromosome if there is an SNV involved in that position?
Thanks in advance! Hope everyone is fine!