danielecook

# https://benjcunningham.org/blog/unnest-list-columns-in-pandas.html
import pandas as pd

def unnest(df, col):
    unnested = (df.apply(lambda x: pd.Series(x[col]), axis=1)
                .stack()
                .reset_index(level=1, drop=True))
    unnested.name = col
    return df.drop(col, axis=1).join(unnested)

danielecook

package main

/*
# <bitbar.title>Strava</bitbar.title>
# <bitbar.version>v0.0.1</bitbar.version>
# <bitbar.author>Daniel Cook</bitbar.author>
# <bitbar.author.github>danielecook</bitbar.author.github>
# <bitbar.desc>Bitbar Strava tracker</bitbar.desc>
*/

danielecook

SET GLOBAL general_log = 'ON';
SET GLOBAL general_log_file = "/Users/dancook/Documents/snippet-q/snippet-q/mysql.log";
SET GLOBAL log_output = 'FILE';

danielecook

import html
import requests
from bs4 import BeautifulSoup

def boolify(s):
    if s == 'True':
        return True
    if s == 'False':
        return False
    raise ValueError("huh?")

danielecook

    ✔ Alignment                                                  |    ✔ Anaconda                                              
    ✔ ayu                                                        |    ✔ Color Highlighter                                     
    ✔ Gist                                                       |    ✔ Git                                                   
    ✔ GitGutter                                                  |    ✔ Jinja2                                                
    ✔ LESS                                                       |    ✔ MarkdownEditing                                       
    ✔ Package Control                                            |    ✔ PackagesUI                                            
    ✔ Pretty JSON                                                |    ✔ Python 3                                              
    ✔ Python Improved                                            |    ✔ rainbow_csv                                           
    ✔ Se

danielecook

sudo launchctl load -w /System/Library/LaunchDaemons/com.apple.locate.plist
sudo /usr/libexec/locate.updatedb

danielecook

asdf

danielecook

{
    "cmd": ["/usr/local/var/pyenv/shims/python", "-u", "$file"],
    "file_regex": "^[ ]*File \"(...*?)\", line ([0-9]*)",
    "selector": "source.python"
}

danielecook

#!/usr/bin/env python
# -*- coding: utf-8 -*-
"""
Author: Daniel E. Cook

This script summarizes variation for samples.

"""

import sys

danielecook

library(tidyverse)


# bcftools query -f "[%GT\t]\n" WI.20170531.impute.vcf.gz  | awk '{ gsub(":GT", "", $0); gsub("(# )?\[[0-9]+\]","",$0); print $0 }' | sed 's/0|0/0/g' | sed 's/1|1/1/g' | sed 's/0|1/NA/g' | sed 's/1|0/NA/g' | head -n 1000000 | gzip > ~/Desktop/impute_gts.test.tsv.gz


df_use <- tseries::read.matrix(gzfile("~/Desktop/impute_gts.tsv.gz"))
          
storage.mode(df_use) <- "logical"
# cols