For more in-depth Python for Bioinformatics training visit: http://www.howtobioinformatics.com/pythonforBioinformatics
Hi and welcome to Python for bioinformatics, my name is Blake Allen, and I am going to show you how to make your first Python for Bioinformatics program, in under 20 minutes.
Were going to go over calculating GC content and making your first Python Program, So if you’re a little more advanced and you already know how to use Python, but you’d like to learn more, go ahead and click the link below where I’ll show you advanced techniques in learning python for bioinformatics.
The first thing we’re going to need is some data. If you don’t have any data, you can’t do any bioinformatics, but the great thing is, is there is a ton of free data online ready to go.
So go ahead and open up your web browser and lets get started, I use chrome.
Go ahead and type in the Letters NCBI. In the search bar go ahead and type in BRCA 1
Click on this little tab right here that says nucleotide. Up at the top we’ve got a few things, go ahead and click on the homo sapiens BRCA1, FASTA tab.
Click on Send in the top right hand corner, click on send to file, and download as FASTA. Then copy that sequence.fasta to a new folder we’ll be working in. Replace the name to BRCA1_BAP1.TXT, then you can open it and look at it.