Tag: rstats

Trrrouble in land of R…and Open Source Suggestions

Recently some comments by Ross Ihake , founder of R Statistical Software on Revolution Analytics, leading commercial vendor of R….. came to my attention-

http://www.stat.auckland.ac.nz/mail/archive/r-downunder/2010-May/000529.html

[R-downunder] Article on Revolution Analytics

Ross Ihaka ihaka at stat.auckland.ac.nz
Mon May 10 14:27:42 NZST 2010

On 09/05/10 09:52, Murray Jorgensen wrote:
> Perhaps of interest:
>
> http://www.theregister.co.uk/2010/05/06/revolution_commercial_r/

Please note that R is "free software" not "open source".  These guys
are selling a GPLed work without disclosing the source to their part
of the work. I have complained to them and so far they have given me
the brush off. I am now considering my options.

Don't support these guys by buying their product. The are not feeding
back to the rights holders (the University of Auckland and I are rights
holders and they didn't even have the courtesy to contact us).

--
Ross Ihaka                         Email:  ihaka at stat.auckland.ac.nz
Department of Statistics           Phone:  (64-9) 373-7599 x 85054
University of Auckland             Fax:    (64-9) 373-7018
Private Bag 92019, Auckland
New Zealand
and from http://www.theregister.co.uk/2010/05/06/revolution_commercial_r/
Open source purists probably won't be all too happy to learn that Revolution is going to be employing an "open core" strategy, which means the core R programs will remain open source and be given tech support under a license model, but the key add-ons that make R more scalable will be closed source and sold under a separate license fee. Because most of those 2,500 add-ons for R were built by academics and Revolution wants to supplant SPSS and SAS as the tools used by students, Revolution will be giving the full single-user version of the R Enterprise stack away for free to academics. 
Conclusion-
So one co-founder of R is advocating not to buy from Revolution Analytics , which has the other co-founder of R, Gentleman on its board. 
Source- http://www.revolutionanalytics.com/aboutus/leadership.php

2) If Revolution Analytics is using 2500 packages for free but insisting on getting paid AND closing source of it’s packages (which is a technical point- how exactly can you prevent source code of a R package from being seen)

Maybe there can be a PACKAGE marketplace just like Android Apps, Facebook Apps, and Salesforce.com Apps – so atleast some of the thousands of R package developers can earn – sorry but email lists do not pay mortgages and no one is disputing the NEED for commercializing R or rewarding developers.

Though Barr created SAS, he gave up control to Goodnight and Sall https://decisionstats.wordpress.com/2010/06/02/sas-early-days/

and Goodnight and Sall do pay their developers well- to the envy of not so well paid counterparts.

3) I really liked the innovation of Revolution Analytics RevoScalar, and I wish that the default R dataset be converted to XDF dataset so that it basically kills

off the R criticism of being slow on bigger datasets. But I also realize the need for creating an analytics marketplace for R developers and R students- so academic version of R being free and Revolution R being paid seems like a trade off.

Note- You can still get a job faster as a stats student if you mention SAS and not R as a statistical skill- not all stats students go into academics.

4) There can be more elegant ways of handling this than calling for ignoring each other as REVOLUTION and Ihake seem to be doing to each other.

I can almost hear people in Cary, NC chuckling at Norman Nie, long time SPSS opponent and now REVOLUTION CEO, and his antagonizing R’s academicians within 1 year of taking over- so I hope this ends well for all. The road to hell is paved with good intentions- so if REVOLUTION can share some source code with say R Core members (even Microsoft shares source code with partners)- and R Core and Revolution agree on a licensing royalty from each other, they can actually speed up R package creation rather than allow this 2 decade effort to end up like S and S plus and TIBCO did.

Maybe Richard Stallman can help-or maybe Ihaka has a better sense of where things will go down in a couple of years-he must know something-he invented it, didnt he

On 09/05/10 09:52, Murray Jorgensen wrote:
> Perhaps of interest:
>
> http://www.theregister.co.uk/2010/05/06/revolution_commercial_r/

Please note that R is "free software" not "open source".  These guys
are selling a GPLed work without disclosing the source to their part
of the work. I have complained to them and so far they have given me
the brush off. I am now considering my options.

Don't support these guys by buying their product. The are not feeding
back to the rights holders (the University of Auckland and I are rights
holders and they didn't even have the courtesy to contact us).

--
Ross Ihaka                         Email:  ihaka at stat.auckland.ac.nz
Department of Statistics           Phone:  (64-9) 373-7599 x 85054
University of Auckland             Fax:    (64-9) 373-7018
Private Bag 92019, Auckland
New Zealand

Event: Predictive analytics with R, PMML and ADAPA

From http://www.meetup.com/R-Users/calendar/14405407/

The September meeting is at the Oracle campus. (This is next door to the Oracle towers, so there is plenty of free parking.) The featured talk is from Alex Guazzelli (Vice President – Analytics, Zementis Inc.) who will talk about “Predictive analytics with R, PMML and ADAPA”.

Agenda:
* 6:15 – 7:00 Networking and Pizza (with thanks to Revolution Analytics)
* 7:00 – 8:00 Talk: Predictive analytics with R, PMML and ADAPA
* 8:00 – 8:30 General discussion

Talk overview:

The rule in the past was that whenever a model was built in a particular development environment, it remained in that environment forever, unless it was manually recoded to work somewhere else. This rule has been shattered with the advent of PMML (Predictive Modeling Markup Language). By providing a uniform standard to represent predictive models, PMML allows for the exchange of predictive solutions between different applications and various vendors.

Once exported as PMML files, models are readily available for deployment into an execution engine for scoring or classification. ADAPA is one example of such an engine. It takes in models expressed in PMML and transforms them into web-services. Models can be executed either remotely by using web-services calls, or via a web console. Users can also use an Excel add-in to score data from inside Excel using models built in R.

R models have been exported into PMML and uploaded in ADAPA for many different purposes. Use cases where clients have used the flexibility of R to develop and the PMML standard combined with ADAPA to deploy range from financial applications (e.g., risk, compliance, fraud) to energy applications for the smart grid. The ability to easily transition solutions developed in R to the operational IT production environment helps eliminate the traditional limitations of R, e.g. performance for high volume or real-time transactional systems and memory constraints associated with large data sets.

Speaker Bio:

Dr. Alex Guazzelli has co-authored the first book on PMML, the Predictive Model Markup Language which is the de facto standard used to represent predictive models. The book, entitled PMML in Action: Unleashing the Power of Open Standards for Data Mining and Predictive Analytics, is available on Amazon.com. As the Vice President of Analytics at Zementis, Inc., Dr. Guazzelli is responsible for developing core technology and analytical solutions under ADAPA, a PMML-based predictive decisioning platform that combines predictive analytics and business rules. ADAPA is the first system of its kind to be offered as a service on the cloud.
Prior to joining Zementis, Dr. Guazzelli was involved in not only building but also deploying predictive solutions for large financial and telecommunication institutions around the globe. In academia, Dr. Guazzelli worked with data mining, neural networks, expert systems and brain theory. His work in brain theory and computational neuroscience has appeared in many peer reviewed publications. At Zementis, Dr. Guazzelli and his team have been involved in a myriad of modeling projects for financial, health-care, gaming, chemical, and manufacturing industries.

Dr. Guazzelli holds a Ph.D. in Computer Science from the University of Southern California and a M.S and B.S. in Computer Science from the Federal University of Rio Grande do Sul, Brazil.

Rapid Miner- R Extension

Here is a new video which shows exactly how you can use Rapid Miner and R together. Advantages of using both together is using Rapid Miner’s GUI (including the flowchart style for data mning) and adding R statistical functionality to it.

From http://rapid-i.com/content/view/219/1/

The web site features a video showing how easy R models and scripts can be integrated into the RapidMiner analysis processes. RapidMiner offers a new R perspective consisting of the known R console together with the great plotting facilities of R. All variables as well as R scripts can be stored in the RapidMiner Repository and used from there which helps to organize the usually large number of scripts. Furthermore, widely used modeling methods are directly integrated as RapidMiner operators as usual.

“This is a huge step for open source data analysis. RapidMiner offers a great user interface, a clear process structure and lots of ETL and analysis capabilities necessary for real-world problems. R adds a lot of flexibility and many analysis and data manipulation methods. The result is the by far most powerful data transformation and analysis solution worldwide. And this analysis power is now combined with the ease-of-use already known from RapidMiner.” states Dr. Ingo Mierswa, CEO of Rapid-I.

Visit the RCOMM 2010 and learn more about how to integrate analysis and preprocessing methods offered by R as well as how to use the new R perspective offering a full R console and access to all R plotters.

Thus Rapid Miner is one more mainstream software (after SPSS, SAS etc) to add R functionality to it.

IPSUR – A Free R Textbook

Here is a free R textbook called IPSUR-

http://ipsur.r-forge.r-project.org/book/index.php

IPSUR stands for Introduction to Probability and Statistics Using R, ISBN: 978-0-557-24979-4, which is a textbook written for an undergraduate course in probability and statistics. The approximate prerequisites are two or three semesters of calculus and some linear algebra in a few places. Attendees of the class include mathematics, engineering, and computer science majors.

IPSUR is FREE, in the GNU sense of the word. Hard copies are available for purchase here from Lulu and will be available (coming soon) from the other standard online retailers worldwide. The price of the book is exactly the manufacturing cost plus the retailers’ markup. You may be able to get it even cheaper by downloading an electronic copy and printing it yourself, but if you elect this route then be sure to get the publisher-quality PDF from theDownloads page. And double check the price. It was cheaper for my students to buy a perfect-bound paperback from Lulu and have it shipped to their door than it was to upload the PDF to Fed-Ex Kinkos and Xerox a coil-bound copy (and on top of that go pick it up at the store).

If you are going to buy from anywhere other than Lulu then be sure to check the time-stamp on the copyright page. There is a 6 to 8 week delay from Lulu to Amazon and you may not be getting the absolute latest version available.

Refer to the Installation page for instructions to install an electronic copy of IPSUR on your personal computer. See the Feedback page for guidance about questions or comments you may have about IPSUR.

Also see http://ipsur.r-forge.r-project.org/rcmdrplugin/index.php for the R Cmdr Plugin

This plugin for the R Commander accompanies the text Introduction to Probability and Statistics Using R by G. Jay Kerns. The plugin contributes functions unique to the book as well as specific configuration and functionality to R Commander, the pioneering work by John Fox of McMaster University.

RcmdrPlugin.IPSUR’s primary goal is to provide a user-friendly graphical user interface (GUI) to the open-source and freely available R statistical computing environment. RcmdrPlugin.IPSUR is equipped to handle many of the statistical analyses and graphical displays usually encountered by upper division undergraduate mathematics, statistics, and engineering majors. Available features are comparable to many expensive commercial packages such as Minitab, SPSS, and JMP-IN.

Since the audience of RcmdrPlugin.IPSUR is slightly different than Rcmdr’s, certain functionality has been added and selected error-checks have been disabled to permit the student to explore alternative regions of the statistical landscape. The resulting benefit of increased flexibility is balanced by somewhat increased vulnerability to syntax errors and misuse; the instructor should keep this and the academic audience in mind when usingRcmdrPlugin.IPSUR in the classroom

Q&A with David Smith, Revolution Analytics.

Here’s a group of questions and answers that David Smith of Revolution Analytics was kind enough to answer post the launch of the new R Package which integrates Hadoop and R-                         RevoScaleR

Ajay- How does RevoScaleR work from a technical viewpoint in terms of Hadoop integration?

David-The point isn’t that there’s a deep technical integration between Revolution R and Hadoop, rather that we see them as complementary (not competing) technologies. Hadoop is amazing at reliably (if slowly) processing huge volumes of distributed data; the RevoScaleR package complements Hadoop by providing statistical algorithms to analyze the data processed by Hadoop. The analogy I use is to compare a freight train with a race car: use Hadoop to slog through a distributed data set and use Map/Reduce to output an aggregated, rectangular data file; then use RevoScaleR to perform statistical analysis on the processed data (and use the speed of RevolScaleR to iterate through many model options to find the best one).

Ajay- How is it different from MapReduce and R Hipe– existing R Hadoop packages?
David- They’re complementary. In fact, we’ll be publishing a white paper soon by Saptarshi Guha, author of the Rhipe R/Hadoop integration, showing how he uses Hadoop to process vast volumes of packet-level VOIP data to identify call time/duration from the packets, and then do a regression on the table of calls using RevoScaleR. There’s a little more detail in this blog post: http://blog.revolutionanalytics.com/2010/08/announcing-big-data-for-revolution-r.html
Ajay- Is it going to be proprietary, free or licensable (open source)?
David- RevoScaleR is a proprietary package, available to paid subscribers (or free to academics) with Revolution R Enterprise. (If you haven’t seen it, you might be interested in this Q&A I did with Matt Shotwell: http://biostatmatt.com/archives/533 )
Ajay- Any existing client case studies for Terabyte level analysis using R.
David- The VOIP example above gets close, but most of the case studies we’ve seen in beta testing have been in the 10’s to 100’s of Gb range. We’ve tested RevoScaleR on larger data sets internally, but we’re eager to hear about real-life use cases in the terabyte range.
Ajay- How can I use RevoScaleR on my dual chip Win Intel laptop for say 5 gb of data.
David- One of the great things about RevoScaleR is that it’s designed to work on commodity hardware like a dual-core laptop. You won’t be constrained by the limited RAM available, and the parallel processing algorithms will make use of all cores available to speed up the analysis even further. There’s an example in this white paper (http://info.revolutionanalytics.com/bigdata.html) of doing linear regression on 13Gb of data on a simple dual-core laptop in less than 5 seconds.
AJ-Thanks to David Smith, for this fast response and wishing him, Saptarshi Guha Dr Norman Nie and the rest of guys at Revolution Analytics a congratulations for this new product launch.

Big Data and R: New Product Release by Revolution Analytics

Press Release by the Guys in Revolution Analytics- this time claiming to enable terabyte level analytics with R. Interesting stuff but techie details are awaited.

Revolution Analytics Brings

Big Data Analysis to R

The world’s most powerful statistics language can now tackle terabyte-class data sets using

Revolution R Enterprise—at a fraction of the cost of legacy analytics products


JSM 2010 – VANCOUVER (August 3, 2010) — Revolution Analytics today introduced ‘Big Data’ analysis to its Revolution R Enterprise software, taking the popular R statistics language to unprecedented new levels of capacity and performance for analyzing very large data sets. For the first time, R users will be able to process, visualize and model terabyte-class data sets in a fraction of the time of legacy products—without employing expensive or specialized hardware.

The new version of Revolution R Enterprise introduces an add-on package called RevoScaleR that provides a new framework for fast and efficient multi-core processing of large data sets. It includes:

  • The XDF file format, a new binary ‘Big Data’ file format with an interface to the R language that provides high-speed access to arbitrary rows, blocks and columns of data.
  • A collection of widely-used statistical algorithms optimized for Big Data, including high-performance implementations of Summary Statistics, Linear Regression, Binomial Logistic Regressionand Crosstabs—with more to be added in the near future.
  • Data Reading & Transformation tools that allow users to interactively explore and prepare large data sets for analysis.
  • Extensibility, expert R users can develop and extend their own statistical algorithms to take advantage of Revolution R Enterprise’s new speed and scalability capabilities.

“The R language’s inherent power and extensibility has driven its explosive adoption as the modern system for predictive analytics,” said Norman H. Nie, president and CEO of Revolution Analytics. “We believe that this new Big Data scalability will help R transition from an amazing research and prototyping tool to a production-ready platform for enterprise applications such as quantitative finance and risk management, social media, bioinformatics and telecommunications data analysis.”

Sage Bionetworks is the nonprofit force behind the open-source collaborative effort, Sage Commons, a place where data and disease models can be shared by scientists to better understand disease biology. David Henderson, Director of Scientific Computing at Sage, commented: “At Sage Bionetworks, we need to analyze genomic databases hundreds of gigabytes in size with R. We’re looking forward to using the high-speed data-analysis features of RevoScaleR to dramatically reduce the times it takes us to process these data sets.”

Take Hadoop and Other Big Data Sources to the Next Level

Revolution R Enterprise fits well within the modern ‘Big Data’ architecture by leveraging popular sources such as Hadoop, NoSQL or key value databases, relational databases and data warehouses. These products can be used to store, regularize and do basic manipulation on very large datasets—while Revolution R Enterprise now provides advanced analytics at unparalleled speed and scale: producing speed on speed.

“Together, Hadoop and R can store and analyze massive, complex data,” said Saptarshi Guha, developer of the popular RHIPE R package that integrates the Hadoop framework with R in an automatically distributed computing environment. “Employing the new capabilities of Revolution R Enterprise, we will be able to go even further and compute Big Data regressions and more.”

Platforms and Availability

The new RevoScaleR package will be delivered as part of Revolution R Enterprise 4.0, which will be available for 32-and 64-bit Microsoft Windows in the next 30 days. Support for Red Hat Enterprise Linux (RHEL 5) is planned for later this year.

On its website (http://www.revolutionanalytics.com/bigdata), Revolution Analytics has published performance and scalability benchmarks for Revolution R Enterprise analyzing a 13.2 gigabyte data set of commercial airline information containing more than 123 million rows, and 29 columns.

Additionally, the company will showcase its new Big Data solution in a free webinar on August 25 at 9:00 a.m. Pacific.

Additional Resources

•      Big Data Benchmark whitepaper

•      The Revolution Analytics Roadmap whitepaper

•      Revolutions Blog

•      Download free academic copy of Revolution R Enterprise

•      Visit Inside-R.org for the most comprehensive set of information on R

•      Spread the word: Add a “Download R!” badge on your website

•      Follow @RevolutionR on Twitter

About Revolution Analytics

Revolution Analytics (http://www.revolutionanalytics.com) is the leading commercial provider of software and support for the popular open source R statistics language. Its Revolution R products help make predictive analytics accessible to every type of user and budget. The company is headquartered in Palo Alto, Calif. and backed by North Bridge Venture Partners and Intel Capital.

Media Contact

Chantal Yang
Page One PR, for Revolution Analytics
Tel: +1 415-875-7494

Email:  revolution@pageonepr.com

R Oracle Data Mining

Here is a new package called R ODM and it is an interface to do Data Mining via Oracle Tables through R. You can read more here http://www.oracle.com/technetwork/database/options/odm/odm-r-integration-089013.html and here http://cran.fhcrc.org/web/packages/RODM/RODM.pdf . Also there is a contest for creative use of R and ODM.

R Interface to Oracle Data Mining

The R Interface to Oracle Data Mining ( R-ODM) allows R users to access the power of Oracle Data Mining’s in-database functions using the familiar R syntax. R-ODM provides a powerful environment for prototyping data analysis and data mining methodologies.

R-ODM is especially useful for:

  • Quick prototyping of vertical or domain-based applications where the Oracle Database supports the application
  • Scripting of “production” data mining methodologies
  • Customizing graphics of ODM data mining results (examples: classification, regression, anomaly detection)

The R-ODM interface allows R users to mine data using Oracle Data Mining from the R programming environment. It consists of a set of function wrappers written in source R language that pass data and parameters from the R environment to the Oracle RDBMS enterprise edition as standard user PL/SQL queries via an ODBC interface. The R-ODM interface code is a thin layer of logic and SQL that calls through an ODBC interface. R-ODM does not use or expose any Oracle product code as it is completely an external interface and not part of any Oracle product. R-ODM is similar to the example scripts (e.g., the PL/SQL demo code) that illustrates the use of Oracle Data Mining, for example, how to create Data Mining models, pass arguments, retrieve results etc.

R-ODM is packaged as a standard R source package and is distributed freely as part of the R environment’s Comprehensive R Archive Network ( CRAN). For information about the R environment, R packages and CRAN, see www.r-project.org.

and

Present and win an Apple iPod Touch!
The BI, Warehousing and Analytics (BIWA) SIG is giving an Apple iPOD Touch to the best new presenter. Be part of the TechCast series and get a chance to win!

Consider highlighting a creative use of R and ODM.

BIWA invites all Oracle professionals (experts, end users, managers, DBAs, developers, data analysts, ISVs, partners, etc.) to submit abstracts for 45 minute technical webcasts to our Oracle BIWA (IOUG SIG) Community in our Wednesday TechCast series. Note that the contest is limited to new presenters to encourage fresh participation by the BIWA community.

Also an interview with Oracle Data Mining head, Charlie Berger https://decisionstats.wordpress.com/2009/09/02/oracle/