Wayne's Bioinformatics Code Portal fomightez

## README.md

      
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                fomightez
                / README.md
            
            
              Last active
              August 8, 2023 15:40
                — forked from jtpio/README.md
            
              
                JupyterLab 4, Notebook 7 and NBClassic on Binder
              
          
    JupyterLab 4 + Notebook 7 + NBClassic on Binder


## README.md

      
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                fomightez
                / README.md
            
            
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              April 5, 2022 15:57
                — forked from jtpio/README.md
            
              
                JupyterLab 3.3.2
              
          
    JupyterLab 3.3.2 on Binder


Forked from JupyterLab 3.3.1 on Binder and updated to 3.3.2.

  
## Biol 3515-Chem 3515 Buffer Titration Simulation
Gist title

## README.md

      
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                fomightez
                / README.md
            
            
              Last active
              December 8, 2021 17:50
                — forked from jtpio/README.md
            
              
                RetroLab with RTC Looking Classic on Binder
              
          
    RetroLab with RTC Looking Classic on Binder

Try it on Binder!

RetroLab 0.3.13 featuring RTC with RetroLogo hidden to look more like the classic notebook, served on Binder
Based on RetroLab 0.3.2 on Binder where RTC works with RetroLab and then combined that with taking advantage of ability to hide the Retro_Logo use the Jupyter Logo to get something closer to the classic notebook where Real Time Colloaboration works. Idea is from here. Updated from version 0.3.2 to 0.3.13 (see releases here).

  
## diff_strings.py
import difflib
from wasabi import color

def diff_strings(a, b):
    output = []
    matcher = difflib.SequenceMatcher(None, a, b)
    for opcode, a0, a1, b0, b1 in matcher.get_opcodes():
        if opcode == "equal":
            output.append(a[a0:a1])
        elif opcode == "insert":

## Visualizing the SpaceX Tesla Roadster trip to Mars.ipynb

      
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                fomightez
                / Visualizing the SpaceX Tesla Roadster trip to Mars.ipynb
            
            
              Created
              February 19, 2018 15:46
                — forked from astrojuanlu/Visualizing the SpaceX Tesla Roadster trip to Mars.ipynb
            
              
                Visualizing the SpaceX Tesla Roadster trip to Mars
              
          
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## legend_circles.py
import matplotlib.pyplot as plt
import seaborn as sns

from matplotlib.lines import Line2D

my_palette = sns.color_palette("cubehelix", 3)
sns.set_palette(my_palette)

def legend_circles(labels, palette, loc=1, markersize=10, marker='o', padding=0):
    "Make a legend where the color is indicated by a circle."

## useful_pandas_snippets.py
# List unique values in a DataFrame column
df['Column Name'].unique()

# 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/)

## OpticalIllusion.ipynb

      
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                fomightez
                / OpticalIllusion.ipynb
            
            
              Created
              April 13, 2017 16:55
                — forked from jakevdp/OpticalIllusion.ipynb
            
          
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## bio_align.py
#!/usr/bin/env python

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

from __future__ import print_function, division

import argparse
import os
	import difflib
	from wasabi import color

	def diff_strings(a, b):
	output = []
	matcher = difflib.SequenceMatcher(None, a, b)
	for opcode, a0, a1, b0, b1 in matcher.get_opcodes():
	if opcode == "equal":
	output.append(a[a0:a1])
	elif opcode == "insert":
	import matplotlib.pyplot as plt
	import seaborn as sns

	from matplotlib.lines import Line2D

	my_palette = sns.color_palette("cubehelix", 3)
	sns.set_palette(my_palette)

	def legend_circles(labels, palette, loc=1, markersize=10, marker='o', padding=0):
	"Make a legend where the color is indicated by a circle."
	# List unique values in a DataFrame column
	df['Column Name'].unique()

	# 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/)
	#!/usr/bin/env python

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

	from __future__ import print_function, division

	import argparse
	import os