Timeline for Is it possible to create a restriction map using python?
Current License: CC BY-SA 3.0
7 events
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| Mar 5, 2016 at 5:23 | comment | added | user137 | Drawing the map isn't hard either. If linear, the DNA of B bases is a line of P pixels long. So the restriction site at position b is drawn at pixel p where p = P * b/B. When circular, you'll need to calculate the pixel from an angle, where the angle is 360 * b/B. | |
| Mar 5, 2016 at 5:20 | comment | added | user137 | Python has good string functions, as do Java and C++. You could make a list of restriction enzymes, probably a map or hashmap. Then you load your DNA sequence as a string and iterate through the list of enzymes, searching for the restriction site in the DNA string, and returning the position of the site in the DNA sequence. If the strings do not match, a -1 will be returned. So if you just want a list, you can print to console or a text file. If you want an image, you need to make a list of restriction sites, with enzyme type and cut location, then use pygame or something to draw the map. | |
| Mar 4, 2016 at 22:30 | history | edited | David | CC BY-SA 3.0 |
Have taken account of the poster's comments and removed suggestion he didn't know what python was etc.
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| Mar 4, 2016 at 22:15 | comment | added | David | OK. I'll edit my answer to take account of that. | |
| Mar 4, 2016 at 19:44 | comment | added | Daniel Bryden Johnson | Thanks for the advice David. It was a homework assignment and I did manage to figure it out. My inquiry to whether it was possible using python is one of interest as I've just started learning it | |
| Mar 4, 2016 at 13:48 | history | edited | David | CC BY-SA 3.0 |
Added a couple more points regarding an algorithm to do this.
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| Mar 3, 2016 at 22:29 | history | answered | David | CC BY-SA 3.0 |