MIBTP: Masterclass on Galaxy Day Two...
Today is the second day of the MIBTP Masterclass on Genome Scale Bioinformatics with Galaxy... (gosh I wish I could type!)
OK - a very frosty morning meant I was nearly late as the handbrake of the car was frozen on - abandoned car, got on bike... went back to car and chocked fron wheels -parked on a hill, visions of unfreezing handbrake propelling car into busy junction.... back on bike!
Enough about me...
Students trying (and so far suceeding) to get the whole genome analysis of Archbishop Desmond Tutu's exonic SNPs running on Galaxy - start off with importing the SNPs from 5 entire personal genomes into a Galaxy history (~11 million line file - take that MSExcel!)...
Then to filter on Ns and places where ABT does not differ from the reference genome... This involves altering the filter command to exclude the requirement to only select Chr22 SNPs - we want to do the whole genome! (also a somewhat existential discussion on the meaning of N...)
Still it's dark in Pennsylvania....
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