• About IR Thoughts
  • Minerazzi Tools
  • Minerazzi Tutorials

IR Thoughts

~ Thoughts on Information Retrieval, Search Engines. Data Mining, and Science & Engineering

IR Thoughts

Category Archives: bioinformatics

A Tutorial on Polynomial Regression through Linear Algebra

22 Sunday Apr 2018

Posted by egarcia in Algorithms, bioinformatics, chemical mining, chemistry, Correlation Coefficients, Data Mining, Mathematics, Statistics and Mathematics

≈ Leave a comment

Tags

Algorithms, Linear Algebra, Mathematics, Matrices, Polynomial Regression, Regression, tools, tutorials

If you are a chemist, biodesigner, or a researcher working in other fields, eventually you may need to fit a paired data set to a polynomial regression model. You could use software to do that, or build your own solution. This tutorial is aimed at those interested in the latter. Access it now at

http://www.minerazzi.com/tutorials/polynomial-regression-tutorial.pdf

Three different methods for implementing polynomial regression are described. Teachers and students might benefit from the tutorial since the calculations can be done with a spreadsheet software like Excel, by writing a computer program, or with a programmable calculator.

 

 

Advertisements

72 Binary Similarity Measures

12 Monday Sep 2016

Posted by egarcia in Algorithms, bioinformatics, calculators, chemistry, Data Conversion, Data Mining, IR Tools, IR Tutorials, News, Programming, Scripts, Software, Statistics and Mathematics, Vector Space Models, Web Mining Course

≈ Leave a comment

Tags

Algorithms, bioinformatics, chemical mining, chemistry, Data Conversion, data miners, Data Mining, information retrieval, ir, minerazzi, miners, mining, news, social mining, statistics, tools, tutorials, Vector Space Models

We have expanded the number of similarity measures that our Binary Similarity Calculator computes from 30 to 72 (and counting…)

Same measures with different names have been consolidated into a single record, and different measures with same name have been enumerated as necessary.

These similarity coefficients have many applications across disciplines: from bioinformatics to chemistry, chemometrics, statistics, data mining, information retrieval, marketing research, etc.

The tool is available at

http://www.minerazzi.com/tools/similarity/binary-similarity-calculator.php

We have also included the new similarity measures proposed by Consonni & Todeschini (2012), and Todeschini, et al (2012).

Our Tutorial on Distance and Similarity was also updated, accordingly. Check it out at

http://www.minerazzi.com/tutorials/distance-similarity-tutorial.pdf

 

References

Consonni, V. and Todeschini, R. (2012). New Similarity Coefficients for Binary Data. MATCH Commun. Math. Comput. Chem. 68, 581-592.

Todeschini, R., Consonni, V., Xiang, H., Holliday, J., Buscema, M., and Willet, P. (2012). Similarity Coefficients for Binary Chemoinformatics Data: Overview and Extended Comparison Using Simulated and Real Data Sets. J. Chem. Inf. Model. 52 (11).

A Step Closer to Mind Retrieval

28 Thursday Apr 2016

Posted by egarcia in Big Data, bioinformatics, Data Mining, Homeland Security, Human-Computer Interaction, Latent Semantic Indexing, Machine Learning, Mind Retrieval, News, Programming, Quantum Computing

≈ 2 Comments

Tags

Algorithms, data miners, Data Mining, information retrieval, ir, Mind Retrieval, minerazzi, tools

We are getting closer to Mind Retrieval. The implications of being able to mine the brain are obvious for all sciences, in addition to homeland security, law and order, marketing research, etc.

I got last night this news, “Scientists map brain’s ‘thesaurus’ to help decode inner thoughts

Scientists at the University of California, Berkeley, have taken a step in that direction by building a “semantic atlas” that shows in vivid colors and multiple dimensions how the human brain organizes language. The atlas identifies brain areas that respond to words that have similar meanings

Read the news here: http://www.nsf.gov/news/news_summ.jsp?cntn_id=138437&WT.mc_id=USNSF_51&WT.mc_ev=click

Last year I mentioned that we are getting close to Mind Retrieval.

https://irthoughts.wordpress.com/2015/06/17/say-hello-to-mind-retrieval/

That post was a reminder of a previous 2010 interview by Nuno Valenzuela, a visionary SEM from Spain. Great guy.

I met Nuno back in 2007 when I was invited to present at a Madrid Search Engine Congress (OJOBuscador) on Latent Semantic Indexing (LSI).

See conference legacy links here

http://web.archive.org/web/20071213063317/http://congreso.ojobuscador.com/2007-madrid/ponentes/

http://web.archive.org/web/20071013183824/http://congreso.ojobuscador.com/2007-madrid/multimedia/

Here is a link to Nuno’s interview. You may want to resize browser window:

https://ithinksearch.wordpress.com/2010/08/10/ideas-entrevista-a-edel-garcia/

And some relevant links here:

https://irthoughts.wordpress.com/2009/06/22/ir-videos-in-spanish/

https://irthoughts.wordpress.com/2008/04/07/demystifying-lsi-video/

Unfortunately, OJOBuscador site is now defunct so their links are broken.

 

BioInformatics Software Miner

01 Tuesday Sep 2015

Posted by egarcia in bioinformatics, Data Mining, IR Tools

≈ Leave a comment

Tags

bioinformatics, bioinformatics software, Data Mining, minerazzi, miners

The BioInformatics Software is a new miner built at Minerazzi.com. It is available at

http://www.minerazzi.com/biosoft/

Find bioinformatics software, tools, packages, open source, scripts, vendors, and more. Search by topic, product name, or vendor.

Another miner, for chemistry software, is in the making.

The BioInformatics Databases Miner

29 Saturday Aug 2015

Posted by egarcia in bioinformatics, Data Mining, IR Tools, Miscellaneous

≈ Leave a comment

Tags

bioinformatics, bioinformatics databases, Data Mining, minerazzi, miners

This is a new miner available at http://www.minerazzi.com/bioinfo. Use it to find or build genome, sequence, proteomics, RNA, pathway, metabolic, microarray, exosomal, PCR, phenotype, taxonomic, carbohydrate, metabolimic, drug design, and imaging collections. Search by topic or database.

Sample queries can be

[ cancer research ], [ rna and dna ], [ bioinformatics ], or similar.

If you are into bioinformatics databases, this miner is for you.

April 2018
M T W T F S S
« Mar    
 1
2345678
9101112131415
16171819202122
23242526272829
30  

Favorite Sites

  • Minerazzi.com

Pages

  • About IR Thoughts
  • Minerazzi Tools
  • Minerazzi Tutorials

Categories

  • 4D Printing
  • AIRWeb Course
  • Algorithms
  • Amazon Alexa
  • Android
  • Best Match Models (BM)
  • Big Data
  • bioinformatics
  • Blogroll
  • calculators
  • Causality & Determinism
  • Chaos
  • chemical mining
  • chemistry
  • Cloud Computing
  • Conferences
  • Correlation Coefficients
  • Cortana
  • Crawlers
  • Curated Collections
  • Data Conversion
  • Data Mining
  • Data Structures
  • Deep Neural Networks
  • Docker
  • Dynamics
  • Favorite Sites
  • Fractal Geometry
  • Graduate Courses
  • Hacking
  • Homeland Security
  • Human-Computer Interaction
  • Image Compression
  • information retrieval
  • Internet Engineering
  • inverted index
  • ir
  • IR Quizzes
  • IR Tools
  • IR Tutorials
  • Kubernetes
  • Latent Semantic Indexing
  • Legacy Posts
  • LIGO
  • Machine Learning
  • Marketing Research
  • Mathematics
  • Medical Cannabis
  • meta-analysis
  • Mind Retrieval
  • miner
  • minerazzi
  • Miscellaneous
  • New Information Retrieval Paradigms
  • News
  • Newsletters
  • Nonlinear Dynamics
  • One-to-Many (O2M)
  • Open Source Projects
  • Patents
  • PCA
  • People Searches
  • Physiology
  • political networks
  • Programming
  • Public Databases
  • Public Records
  • Quack Science
  • Quantum Computing
  • Quantum Information Retrieval
  • Quantum Searches
  • Queries
  • Scripts
  • Search Engines Architecture Course
  • Search Modes
  • self-weighting
  • SEO Myths
  • social mining
  • social pulse parser
  • Software
  • Spam
  • Statistics and Mathematics
  • SVD
  • Technology Inventions
  • Theses
  • twitter
  • Vector Space Models
  • Voice Assistants
  • Web Mining Course
  • Xamarin

Recent Posts

  • Math Bios: Mathematician Biographies
  • A Tutorial on Polynomial Regression through Linear Algebra
  • One-to-Many (O2M) Tools
  • Manglar: Evolutionary Patterns
  • The Chaos Game Explorer Tool
  • On Chaos, Fractals, and the Google Matrix
  • On PageRank, Spatial Networks, and Bifurcation Diagrams
  • Bifurcation Diagrams Explorer
  • Tired of Newspaper Paywalls?
  • Amazon Alexa Miner
  • Surviving Hurricane Maria
  • Microsoft Cortana Miner
  • Could Deep Neural Networks (DNN) be more Accurate than Humans at Detecting Sexual Orientation from Facial Images?
  • Hurricane Irma Watch
  • The Web Feed Flattener Tool

Archives

  • April 2018
  • March 2018
  • February 2018
  • January 2018
  • September 2017
  • August 2017
  • July 2017
  • June 2017
  • May 2017
  • April 2017
  • March 2017
  • February 2017
  • January 2017
  • December 2016
  • November 2016
  • October 2016
  • September 2016
  • August 2016
  • July 2016
  • June 2016
  • May 2016
  • April 2016
  • March 2016
  • February 2016
  • January 2016
  • December 2015
  • November 2015
  • October 2015
  • September 2015
  • August 2015
  • July 2015
  • June 2015
  • May 2015
  • April 2015
  • March 2015
  • February 2015
  • January 2015
  • December 2014
  • November 2014
  • October 2014
  • September 2014
  • August 2014
  • July 2014
  • June 2014
  • May 2014
  • April 2014
  • March 2014
  • January 2014
  • December 2013
  • November 2013
  • October 2013
  • September 2013
  • August 2013
  • July 2013
  • May 2013
  • April 2013
  • March 2013
  • February 2013
  • January 2013
  • December 2012
  • November 2012
  • October 2012
  • September 2012
  • August 2012
  • July 2012
  • June 2012
  • May 2012
  • April 2012
  • March 2012
  • February 2012
  • January 2012
  • December 2011
  • November 2011
  • October 2011
  • September 2011
  • August 2011
  • July 2011
  • June 2011
  • May 2011
  • April 2011
  • February 2011
  • January 2011
  • December 2010
  • November 2010
  • October 2010
  • September 2010
  • August 2010
  • July 2010
  • June 2010
  • May 2010
  • April 2010
  • March 2010
  • February 2010
  • January 2010
  • December 2009
  • November 2009
  • October 2009
  • September 2009
  • August 2009
  • July 2009
  • June 2009
  • May 2009
  • April 2009
  • March 2009
  • February 2009
  • January 2009
  • December 2008
  • November 2008
  • October 2008
  • September 2008
  • August 2008
  • July 2008
  • June 2008
  • May 2008
  • April 2008
  • March 2008
  • February 2008
  • January 2008
  • December 2007
  • November 2007
  • October 2007
  • September 2007
  • August 2007
  • July 2007
  • June 2007
  • May 2007
  • April 2007

Algorithms calculators chemical mining Conferences Data Mining Graduate Courses Hacking Homeland Security Human-Computer Interaction IR Tools IR Tutorials Latent Semantic Indexing Legacy Posts Machine Learning Marketing Research Mathematics Miscellaneous New Information Retrieval Paradigms News Newsletters Programming Queries Scripts Search Engines Architecture Course SEO Myths Software Spam Statistics and Mathematics Vector Space Models Web Mining Course
Advertisements

Create a free website or blog at WordPress.com.