hpiwowar

### Heather Piwowar
# Modifications to add confidence intervals added by Heather Piwowar

# Based on dotchart2{Hmisc}
dotchart2.CIs = 
function (data, labels, groups = NULL, gdata = NA, horizontal = TRUE, 
    pch = 16, xlab = "", ylab = "", auxdata, auxgdata = NULL, 
    auxtitle, lty = if (.R.) 1 else 2, lines = TRUE, dotsize = 0.8, 
    cex = par("cex"), cex.labels = cex, cex.group.labels = cex.labels * 
        1.25, sort. = TRUE, add = FALSE, dotfont = par("font"), 

hpiwowar

### Heather Piwowar
### MIT open license. 
### blog post about interm results:  

library(rms)

# if true, draw figures on screen instead of in a file
SCREEN=TRUE

# set to ".eps" or ".png"

hpiwowar

#!/usr/bin/env python
# Initially written by Heather Piwowar, June 2011
# Public domain: have at it!
# For converting ISI Web of Science tab-delimited exports into bibtex format

import csv
import glob
import random
from collections import defaultdict
import codecs

hpiwowar

#!/usr/bin/env python
# Initially written by Heather Piwowar, June 2011
# Public domain: have at it!
# For annotating bibtex files, pulling in article info from customized spreadsheets

import csv
import re
import codecs
from pybtex.database.input import bibtex as bibtex_in
from pybtex.database.output import bibtex as bibtex_out

hpiwowar

#!/usr/bin/env python
# Initially written by Heather Piwowar, June 2011
# Public domain: have at it!
# For stratified sampling of bibtex records

import random
import math
import re
from collections import defaultdict

hpiwowar

#!/usr/bin/env python
# Initially written by Heather Piwowar, June 2011
# Public domain: have at it!
# For exporting bibtex info into csv for running stats

import csv
import re
from pybtex.database.input import bibtex as bibtex_in
from pybtex.database.output import bibtex as bibtex_out
from operator import itemgetter, attrgetter

hpiwowar

# -*- coding: utf-8 -*-
#!/usr/bin/env python
### Example code to access the Mendeley OAuth2 API
### Author: Juan Pablo Alperin

import requests
import requests.auth
import urllib
CLIENT_ID = ''
CLIENT_SECRET = ''

hpiwowar

www.ncbi.nlm.nih.gov                       | 3482858
 arxiv.org                                  |  655343
 www.persee.fr                              |  200061
 ftp.ncbi.nlm.nih.gov                       |  130586
 biblio.ugent.be                            |   23772
 cds.cern.ch                                |   21790
 repositorio.unesp.br                       |   19220
 hal.archives-ouvertes.fr                   |   15174
 orbit.dtu.dk                               |   11655
 www.econstor.eu                            |   10176

hpiwowar

def get_row_iterator_jsonl_gz(filename, log_period_s=5): # log_period_s=None for no logging
    import gzip
    import time
    import os.path
    import json
        

    # this is the compressed file size
    # looks like the gzip format only defines the uncompressed file size modulo 2^32
    file_size = os.path.getsize(filename)  

hpiwowar

import os
import json
import gspread
from oauth2client.service_account import ServiceAccountCredentials

# based on https://www.twilio.com/blog/2017/02/an-easy-way-to-read-and-write-to-a-google-spreadsheet-in-python.html
# read that file for how to generate the creds and how to use gspread to read and write to the spreadsheet

# use creds to create a client to interact with the Google Drive API
scopes = ['https://spreadsheets.google.com/feeds']