Max Nanis x0xMaximus

x0xMaximus / BFOA.py

Last active July 13, 2022 09:29

Bacterial Foraging Optimization Algorithm

	# Bacterial Foraging Optimization Algorithm
	# (c) Copyright 2013 Max Nanis [[email protected]].

	import os, random, math, csv

	class BFOA():

	def __init__(self, pop_size = 100, problem_size = 2, dimension = [-1, 1], elim_disp_steps = 1, repro_steps = 4, chem_steps = 30):
	self.step_index = 0
	self.run_id = os.urandom(6).encode('hex')

x0xMaximus / gist:6067235

Created July 24, 2013 00:24

Javascript false positive and negative rate

	var user = [0,1,0,0,1,0,0,1,1,0,0,0,1,0],
	truth = [0,1,1,1,0,0,0,0,1,1,0,0,1,1];

	function compare(user, truth) {
	var a = 0, b = 0, c = 0, d = 0, fpr, fnr;
	if( truth.length !== user.length ) return;
	for (var i = 0; i < truth.length; i++) {
	switch(user[i] + truth[i]) {
	case 0: ++d; break;
	case 2: ++a; break;

x0xMaximus / 1FNT_PROTEASOME.py

Created December 8, 2011 13:48

Rhinoscript/pyGH code for 1FNT Aluminium surface

	#!/usr/bin/env python3.1
	import math as m, random as r, rhinoscriptsyntax as rs

	# 1UBQ, 1F9J, 1R4N, 1FXT, 1LDK, 1FQK, 1FNT
	ubiquitin = "MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG"
	tetraubiquitin = "MQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGGMQIFVKTLTGKTITLEVEPSDTIENVKAKIQDKEGIPPDQQRLIFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG"
	eone = "MAQLGKLLKEQKYDRQLRLWGDHGQEALESAHVCLINATATGTEILKNLVLPGIGSFTIIDGNQVSGEDAGNNFFLQRSSIGKNRAEAAMEFLQELNSDVSGSFVEESPENLLDNDPSFFCRFTVVVATQLPESTSLRLADVLWNSQIPLLICRTYGLVGYMRIIIKEHPVIESHPDNALEDLRLDKPFPELREHFQSYDLDHMEKKDHSHTPWIVIIAKYLAQWYSETNGRIPKTYKEKEDFRDLIRQGILKPEDEENFEEAIKNVNTALNTTQIPSSIEDIFNDDRCINITKQTPSFWILARALKEFVAKEGQGNLPVRGTIPDMIADSGKYIKLQNVYREKAKKDAAAVGNHVAKLLQSIGQAPESISEKELKLLCSNSAFLRVVRCRSLAEEYGLDTINKDEIISSMDNPDNEIVLYLMLRAVDRFHKQQGRYPGVSNYQVEEDIGKLKSCLTGFLQEYGLSVMVKDDYVHEFCRYGAAEPHTIAAFLGGAAAQEVIKIITKQFVIFNNTYIYSGMSQTSATFQLDWEGRWNHVKKFLERSGPFTHPDFEPSTESLQFLLDTCKVLVIGAGGLGCELLKNLALSGFRQIHVIDMDTIDVSNLNRQFLFRPKDIGRPKAEVAAEFL

x0xMaximus / tmpred.py

Created October 5, 2011 19:12

Python script for transmembrane region calcuations

	#!/usr/bin/env python3.1
	# cc attribution-sharealike // max [@] maxnanis.com
	#transmembrane
	import re
	def tmpred(aa):
	aa = aa.upper()
	engine = re.compile("[^A-Z]")
	aa = engine.sub("", aa)
	ruler = ''
	count = 1

x0xMaximus / translate.py

Created September 28, 2011 12:18

Python Scripting for Williams Bio319

	#!/usr/bin/env python3
	# cc attribution-sharealike // max [@] maxnanis.com

	import re
	from bio import fastad, fastac, rc

	# set up a standard code table (as a Python dictionary)
	# takes in a nucleotide string and returns the amino acid string
	stdcode = {}
	stdcode["TTT"] = stdcode["TTC"] = "F"