fomightez

# List unique values in a DataFrame column
df['Column Name'].unique() # Note, `NaN` is included as a unique value. If you just want the number, use `nunique()` which stands
# for 'number of unique values';  By default, it excludes `NaN`. `.nunique(dropna=False)` will include `NaN` in the count of unique values.

# To extract a specific column (subset the dataframe), you can use [ ] (brackets) or attribute notation.
df.height
df['height']
# are same thing!!! (from http://www.stephaniehicks.com/learnPython/pages/pandas.html 
# -or-
# http://www.datacarpentry.org/python-ecology-lesson/02-index-slice-subset/)

willmasters

Updated 2025-01-17 thanks to Yemster's comment.

This should work on any architecture of Amazon Linux 2. 
(_Although not tested , should also work for Amazon Linux 2023_).

**Prereq** 
- visit https://johnvansickle.com/ffmpeg/ to grab the link to the relevant tarball for your specific server architecture.
- Use `uname -a` to find out your arch if unknown

### TL;DR

sminot

import os
from functools import lru_cache
from collections import defaultdict

# Read in the taxonomy
class NCBITaxonomy():
    def __init__(self, folder):
        self.tax = defaultdict(dict)
        # Read in the file of taxid information
        names_fp = os.path.join(folder, 'names.dmp')

beesandbombs

int[][] result;
float t, c;

float ease(float p) {
  return 3*p*p - 2*p*p*p;
}

float ease(float p, float g) {
  if (p < 0.5) 
    return 0.5 * pow(2*p, g);

jakevdp

jakevdp

fomightez

%matplotlib notebook
# use `%matplotlib notebook` if you are using current JupyterLab

from vpython import *
import matplotlib.pyplot as plt
plt.style.use('ggplot')

# based on "AtomicSolid" by Bruce Sherwood
# adapted to include realtime matplotlib by Wayne Decatur

fomightez

• Go to my fork of the VPython Binder repository in your browser.

• Click on the on the bottom of that page.

• That will take you to a new page and trigger deploying version of the jupyter notebook environment from the correct repository. You shouldn't need to do anything as this takes place; you can watch the progress bar roughly in the middle of the screen, just below the Launch button. It may take about a minute. After it boots up, it should bring you to the dashboard that will look like below

fomightez

• Go to VPython.org in your browser. The landing page will look like below.

• Click on Binder package link on that page. That link is near the very bottom of the part of the page that is showing above; it is just below Demo Programs.

• A notebook will then launch. (Sometimes first times they hang, just hit reload in your browser.)
  After it loads fully it will look like below with a URL different from what you see but similar.
  

JoaoRodrigues

#!/usr/bin/env python

"""Sequence-based structural alignment of two proteins."""

import argparse
import pathlib

from Bio.PDB import FastMMCIFParser, MMCIFIO, PDBParser, PDBIO, Superimposer
from Bio.PDB.Polypeptide import is_aa