alistairwalsh

"""Tools for searching Pubmed for a list of PMIDs.

The goal here is to search for many PMIDs at once, since searching
sequentially can take a long time. Using the the BioPython Entrez module
is super convenient to this end.

The results results are returned in a simple dictionary format.
"""

alistairwalsh

#Sample PLOS api code for use with python Solr library Sunburnt
#( https://github.com/tow/sunburnt )
#!Note! requires sunburnt's external libraries: httplib2,lxml 
#https://groups.google.com/d/topic/plos-api-developers/zv591sFz6TM/discussion

import sunburnt,urllib2
class PlosInterface(sunburnt.SolrInterface):
    def __init__(self,api_key):
        plos_url = "http://api.plos.org/search"
        #either

alistairwalsh

alistairwalsh

import numpy as np
from sklearn.preprocessing import Imputer

#generate some data
df1 = np.array(np.random.randn(1000)).reshape(100,10)

#make some values 'NaN'
df1[(df1>-.05) & (df1<.05)] = np.nan

X = df1

alistairwalsh

def peel(name):
  return name[1:-1]

bag = ['dutch cream','desiree','kifler'] 

for potato in bag:
  print peel(potato)