The document discusses open source software tools for data scientists. It begins by defining a data scientist and explaining why open source software is useful. It then surveys and summarizes numerous popular open source tools for statistical analysis, data mining, machine learning, natural language processing, social network analysis, data visualization, and data fusion/analysis. The tools covered include R, Pandas, Impala, Mahout, Scikit-learn, Mallet, NLTK, Stanford CoreNLP, CLAVIN, NetworkX, Gephi, D3.js, and Lumify. It concludes by recommending that companies focus their budgets on people, resources, and proprietary software when necessary rather than on software licenses.

1. Open Source Software
for Data Scientists
Charlie Greenbacker, Director of Data Science02 Apr 2014

2. Altamira Technologies Corporation 2014
Agenda
￭ What is a Data Scientist?
￭ Why use Open Source Software?
￭ Survey of Open Source Software Tools:
¤ Statistical Analysis
¤ Data Mining
¤ Machine Learning
¤ Natural Language Processing
¤ Social Network Analysis
¤ Data Visualization

3. Altamira Technologies Corporation 2014
About me: @greenbacker
Theories: popular tripe
Methods: sloppy
Conclusions: highly questionable photo: Columbia Pictures

4. Altamira Technologies Corporation 2014
Best reason for
not finishing PhD

5. Altamira Technologies Corporation 2014
@ExploreAltamira

6. What is a Data Scientist?

10. credit: Drew Conway (http://drewconway.com/zia/2013/3/26/the-data-science-venn-diagram)

11. http://www.itproportal.com/2014/02/11/how-to-pick-a-data-scientist-the-right-way/
Paul Cooper, ITProPortal.com
“A data scientist is someone who
understands the domains of
programming, machine learning,
data mining, statistics, and
hacking”

12. Computer Programming
Mathematics & Analytic Methodology
Distributed Computing & Big Data
Data Science
StatisticalAnalysis
DataMining
MachineLearning
NaturalLanguageProcessing
SocialNetworkAnalysis
DataVisualization
Domain Knowledge & Communication Skills
etc.Altamira Technologies Corporation 2014

13. Why use Open Source Software?

14. photo: Karen (https://flic.kr/p/5njby2)
THERE ARE NO SILVER BULLETS."

15. photo: Paul Inkles (https://flic.kr/p/e2QMS5)
IF YOUR BOSS BUYS SOMETHING,"
YOU DAMN WELL BETTER USE IT."

16. photo: Valugi (http://bit.ly/1jrvVBC)
BUDGETS DON’T SCALE."

17. Survey of OSS Tools

18. Altamira Technologies Corporation 2014
Statistical Analysis
￭ Name: R
￭ Creator: Gentleman, Ihaka, et al.
￭ License: GPL Version 2
￭ Website: r-project.org
￭ Source: cran.us.r-project.org/src/base/
￭ Features:
¤ Language & environment for statistical computing & viz
¤ Linear and nonlinear modeling, classical statistical tests,
time-series analysis, graphical techniques, and more…
¤ 5000+ packages available in CRAN repository

19. Altamira Technologies Corporation 2014
Data Mining
￭ Name: Pandas
￭ Creator: Wes McKinney, et al.
￭ License: BSD 3-Clause License
￭ Website: pandas.pydata.org
￭ Source: github.com/pydata/pandas
￭ Features:
¤ Data analysis workflow in Python
¤ DataFrame object for fast manipulation & indexing
¤ Tools for reading & writing data between formats
¤ Label-based slicing, indexing, and subsetting of data

20. Altamira Technologies Corporation 2014
Data Mining
￭ Name: Impala
￭ Creator: Cloudera
￭ License: Apache License 2.0
￭ Website: impala.io
￭ Source: github.com/cloudera/impala
￭ Features:
¤ MPP query engine implemented on Hadoop
¤ Low latency, high concurrency SQL & BI queries
¤ Same interfaces as Apache Hive, but ~24x faster
¤ Written in C++; does not use MapReduce

21. Altamira Technologies Corporation 2014
Machine Learning
￭ Name: Mahout
￭ Creator: ASF
￭ License: Apache License 2.0
￭ Website: mahout.apache.org
￭ Source: svn.apache.org/viewvc/mahout
￭ Features:
¤ Distributed/scalable ML library for Hadoop
¤ Classification, Clustering, Collaborative filtering
¤ Logistic regression, naïve Bayes, random forest, neural
networks, HMM, k-means, SVD, PCA, ALS, LDA, etc.

22. Altamira Technologies Corporation 2014
Machine Learning
￭ Name: Scikit-learn
￭ Creator: Cournapeau, et al.
￭ License: BSD 3-Clause License
￭ Website: scikit-learn.org
￭ Source: github.com/scikit-learn/scikit-learn
￭ Features:
¤ ML library for Python built on NumPy, SciPy, matplotlib
¤ Support for classification, clustering, dimensionality
reduction, regression, model selection, preprocessing
¤ SVM, k-NN, PCA, NNMF, crossval, feature extraction, ...

23. Altamira Technologies Corporation 2014
Machine Learning + NLP
￭ Name: Mallet
￭ Creator: UMass (McCallum, et al.)
￭ License: Common Public License 1.0
￭ Website: mallet.cs.umass.edu
￭ Source: hg-iesl.cs.umass.edu/hg/mallet
￭ Features:
¤ Java-based “Machine Learning for Language Toolkit”
¤ Document classification, clustering, topic modeling,
information extraction & sequence tagging, etc.
¤ Efficient implementation of LDA for topic modeling

24. Altamira Technologies Corporation 2014
Natural Language Processing
￭ Name: NLTK
￭ Creator: Bird, Loper, et al.
￭ License: Apache License 2.0
￭ Website: nltk.org
￭ Source: github.com/nltk/nltk
￭ Features:
¤ Natural Language Toolkit for Python
¤ Built-in support for dozens of corpora & trained models
¤ Libraries for classification, tokenization, stemming,
tagging, parsing, and semantic reasoning

25. Altamira Technologies Corporation 2014
Natural Language Processing
￭ Name: Stanford CoreNLP
￭ Creator: Stanford NLP Group
￭ License: GPL Version 2
￭ Website: nlp.stanford.edu/software/corenlp.shtml
￭ Source: github.com/stanfordnlp/CoreNLP
￭ Features:
¤ Suite of high-quality, Java-based NLP tools
¤ Includes POS tagger, named entity recognizer, parser,
coreference resolution, sentiment analysis, SUTime, etc.
¤ Includes models for English, Chinese, Arabic, German

26. Altamira Technologies Corporation 2014
NLP + Geospatial Analysis
￭ Name: CLAVIN
￭ Creator: Berico Technologies
￭ License: Apache License 2.0
￭ Website: clavin.io
￭ Source: github.com/Berico-Technologies/CLAVIN
￭ Features:
¤ Extracts location names from text, resolves to gazetteer
¤ Employs context-based geospatial entity resolution
¤ ~75% accuracy, processes 1M documents per hour
¤ Built on Hadoop, CoreNLP, OpenNLP, GeoNames.org

27. Altamira Technologies Corporation 2014
Social Network Analysis
￭ Name: NetworkX
￭ Creator: Los Alamos National Lab
￭ License: BSD 3-Clause License
￭ Website: networkx.github.io
￭ Source: github.com/networkx/networkx
￭ Features:
¤ Python structures for graphs, digraphs, & multigraphs
¤ Support for creating, manipulating, & analyzing the
structure, dynamics, & functions of complex networks
¤ Provides standard graph algorithms & analysis metrics

28. Altamira Technologies Corporation 2014
Social Network Analysis
￭ Name: Gephi
￭ Creator: UTC France
￭ License: GPL Version 3
￭ Website: gephi.org
￭ Source: github.com/gephi/gephi
￭ Features:
¤ Network analysis and visualization package for Java
¤ Dynamic network analysis with temporal filtering
¤ Metrics include: community detection, betweenness,
closeness, clustering coefficient, PageRank, etc.

29. Altamira Technologies Corporation 2014
Data Visualization
￭ Name: D3.js
￭ Creator: Mike Bostock
￭ License: BSD 3-Clause License
￭ Website: d3js.org
￭ Source: github.com/mbostock/d3
￭ Features:
¤ JavaScript library based on HTML, SVG, and CSS
¤ Binds data to DOM & enables transformations
¤ ~200 examples, including: force-directed graphs,
choropleths, treemaps, dendrograms, animations, etc.

30. Altamira Technologies Corporation 2014
Fusion, Analysis, and Visualization
￭ Name: Lumify
￭ Creator: Altamira
￭ License: Apache License 2.0
￭ Website: lumify.io
￭ Source: github.com/altamiracorp/lumify
￭ Features:
¤ Built on Hadoop, Storm, Accumulo, Elasticsearch, etc.
¤ Integrates structured data, text, images, video
¤ Cell-level security & access controls
¤ Live, shared collaborative workspaces

32. Altamira Technologies Corporation 2014
Final Thought…
Save your $$$ for:
¨ People
¤ salaries, training, etc.
¨ Resources
¤ hardware, AWS, etc.
¨ Proprietary software
¤ if no viable OSS
alternative exists
photo: Brett Weinstein (http://bit.ly/1dHXvqJ)
FINAL
THOUGHT
Springer’s

33. open source software for data scientists
oss4ds.com

34. Charlie Greenbacker | @greenbacker
oss4ds.com