Emmanuel Noutahi maclandrol

maclandrol / concat.py

Created June 19, 2015 16:07

	#!/usr/bin/env python
	import argparse
	from glob import glob
	import os
	try:
	from Bio.SeqRecord import SeqRecord
	from Bio import AlignIO
	from Bio.Align import MultipleSeqAlignment
	from Bio.Seq import Seq
	from Bio.Alphabet import generic_protein

maclandrol / disptree.py

Created June 26, 2015 14:40

	from ete2 import PhyloNode, TreeStyle
	import sys
	if(len(sys.argv)<2):
	sys.exit("Usage : python disptree.py input output")
	else:
	inputfile, output = sys.argv[1], sys.argv[2]
	t = PhyloNode(inputfile)
	ts = TreeStyle()
	ts.show_branch_length = True
	ts.show_branch_support = True

maclandrol / jekyll.py

Created January 10, 2016 01:35

	# modification of config created here: https://gist.github.com/cscorley/9144544
	try:
	from urllib.parse import quote # Py 3
	except ImportError:
	from urllib2 import quote # Py 2
	import os
	import sys
	from settings import template_path, template_file, build_dir, rel_img_path
	f = None
	for arg in sys.argv:

maclandrol / index.html

Created October 1, 2016 20:26

	<!doctype html>
	<html>
	<head>
	<meta charset="utf-8">
	<meta name="viewport" content="width=device-width, initial-scale=1.0, maximum-scale=1.0, user-scalable=no">

	<title>College made you dumber</title>

	<link rel="stylesheet" href="/static/css/reveal.css">
	<link rel="stylesheet" href="/static/css/theme/black.css">

maclandrol / comp_tree.py

Created August 16, 2017 21:49

	#!/usr/bin/env python
	from ete3 import Tree

	# pseudo code
	# binary rooted tree comparison
	def equals(tree1, tree2):

	if tree1 == tree2:
	return True
	# checking only leaf names

maclandrol / tree_simul.py

Created December 10, 2017 22:47

Tree simulation

	#!/usr/bin/env python
	from ete3 import Tree
	import random


	def delete_single_child_internal(t):
	"""Utility function that removes internal nodes
	with a single child from tree"""

	for node in t.traverse("postorder"):

maclandrol / import_ben_treemap.py

Last active April 15, 2018 21:32

Origin of imported Good in Benin (2016)

	from pycountry_convert import country_alpha2_to_continent_code as a2ctc
	from pycountry_convert import convert_continent_code_to_continent_name as ctc2ctn
	from pycountry_convert import country_alpha3_to_country_alpha2 as a3a2
	from pycountry_convert import country_alpha2_to_country_name as a2cn
	from functools import partial
	from d3IpyPlus import *
	# let's keep the following columns only
	datafile = "en_profile_country_ben_import_des.csv"
	cols = ['year', 'country_origin_id', 'country_destination_id', 'import_val']

maclandrol / mdl_extended_parser.ipynb

Last active October 28, 2021 17:21

MDL extended parser (Ketcher flavour)

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maclandrol / molecule_alignment.ipynb

Last active March 14, 2022 20:03

template alignment

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maclandrol / molfeat-chemgpt.ipynb

Last active May 22, 2023 14:46

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