myExperiment - Content

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Adam Woznica

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Input data and background knowledge used in the KUP ...

Created: 2011-05-25 16:39:48

Credits: Adam Woznica

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Compressed RM repository directory containing input data and background knowledge used in the KUP data mining challenge (http://tunedit.org/challenge/ON)

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Bioclipse Scripting Language

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Egon Willighagen

Authenticate with the OpenTox network (1)

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Bioclipse script commands log authenticate with the OpenTox network.

Created: 2011-05-25 | Last updated: 2011-05-25

Credits: Egon Willighagen

Bioclipse Scripting Language

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Egon Willighagen

Create a molecules table from a list of IU... (1)

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Scripts that uses OPSIN to convert IUPAC names into chemical structures, which are saved as SD file and openend in the Bioclipse molecules table.

Created: 2011-05-25 | Last updated: 2011-05-25

Credits: Egon Willighagen

RapidMiner

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Mikolaj Morzy

Wykorzystanie klasyfikatora binarnego do k... (1)

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Wiele klasyfikatorów (np. SVM) pozwala na klasyfikacjÄ™ jedynie w przypadku gdy zmienna celu jest binarna. PoniÅ¼szy przepÅ‚yw pokazuje, w jaki sposób operator Polynomial By Binomial Classificaiton pozwala agregowaÄ‡ odpowiedzi klasyfikatorów binarnych dla przypadków, w których zmienna celu zawiera wiele róÅ¼nych wartoÅ›ci.

Created: 2011-05-25 | Last updated: 2011-05-25

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Mikolaj Morzy

Prosty przykÅ‚ad metody Voting (1)

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Ten prosty przykÅ‚ad ilustruje wykorzystanie operatora Voting do przeprowadzenia gÅ‚osowania wiÄ™kszoÅ›ciowego. W zagnieÅ¼dÅ¼onym operatorze umieszczono przykÅ‚adowe trzy modele bazowe (drzewo decyzyjne, sieÄ‡ neuronowa, SVN), odpowiedÅº z operatora Voting to zwykÅ‚e gÅ‚osowanie.

Created: 2011-05-25 | Last updated: 2011-05-25

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Mikolaj Morzy

PrzykÅ‚ad metody Stacking (1)

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PoniÅ¼szy przepÅ‚yw pokazuje wykorzystanie operatora Stacking do tworzenia meta-klasyfikatorów. Operator Stacking pozwala na zagnieÅ¼dÅ¼enie dowolnej liczby modeli bazowych, które bÄ™dÄ… równolegle uczone na zbiorze uczÄ…cym. Drugim operatorem zagnieÅ¼dÅ¼onym jest model klasyfikatora, który uczy siÄ™ na odpowiedziach modeli bazowych (czyli buduje model modeli odpowiedzi). W przykÅ‚adzie jako modele bazowe wykorzystano: drzewo decyzyjne, algorytm k-NN, sieÄ‡ neurono...

Created: 2011-05-25 | Last updated: 2011-05-25

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Mikolaj Morzy

Prosty przykÅ‚ad algorytmu AdaBoost (1)

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PrzepÅ‚yw obrazuje przykÅ‚ad wykorzystania algorytmu AdaBoost. W kolejnych teracjach metoda modyfikuje przykÅ‚ady ze zbioru uczÄ…cego, przypisujÄ…c wiÄ™kszÄ… wagÄ™ przykÅ‚adom bÅ‚Ä™dnie sklasyfikowanym we wczeÅ›niejszych iteracjach.

Created: 2011-05-25 | Last updated: 2011-05-25

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Mikolaj Morzy

Przyklad metody Bagging (1)

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Proces pokazuje przykÅ‚ad wykorzystania metody Bagging do tworzenia zloÅ¼onych klasyfikatorów. Metoda generuje 10 niezaleÅ¼nych modeli drzewa decyzyjnego (kaÅ¼dy na podstawie 90% próbki zbioru uczÄ…cego). Ostateczna odpowiedÅº jest wynikiem gÅ‚osowania.

Created: 2011-05-25 | Last updated: 2011-05-25

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George

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**TUTORIAL ANNOUNCEMENT: Introduction to Implementin...

Created: 2011-05-24 15:56:58 | Last updated: 2011-05-24 15:56:59

Credits: George

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Normal 0 false false false MicrosoftInternetExplorer4 st1\:*{behavior:url(#ieooui) } /* Style Definitions */ table.MsoNormalTable {mso-style-name:"Table Normal"; mso-tstyle-rowband-size:0; mso-tstyle-colband-size:0; mso-style-noshow:yes; mso-style-parent:""; mso-padding-alt:0cm 5.4pt 0cm 5.4pt; mso-para-margin:0cm; mso-para-margin-bottom:.0001pt; mso-pagination:widow-orphan; font-size:10.0pt; font-family:"Times New Roman"; mso-ansi...

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Taverna 2

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Kalai

Download Structures from PubChem given che... (1)

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This workflow takes the input file containing chemical names and returns a single SDF file of structures. The names are searched against pubchem compounds via e-search. If the compound name is found an XML file containing PubChem ID is returned.The max return compound_ID is set to 1 which could be increased. If the compound name is not found then no ID is returned. The pubchem compound_ID is then used to download structures from PubChem.

Created: 2011-05-24 | Last updated: 2011-05-24

Credits: Kalai Michael Gerlich

Attributions: Download Entries from PubChem

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David De Roure

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Presentation - The Multiple Networks of myExperiment

Created: 2011-05-24 07:16:54 | Last updated: 2011-05-24 07:22:08

Title: The Multiple Networks of myExperiment Speaker: David De Roure Event: CCGrid 2011 Social Networks Workshop Event URL: http://www.ksri.kit.edu/Default.aspx?PageId=800&lang=de Location: Newport Beach, CA, US Date: Monday, May 23, 2011 Formats: ..pptx

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Adam Woznica

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Plots fibrosis data (R script)

Created: 2011-05-23 13:02:34 | Last updated: 2011-05-24 20:27:58

Credits: Adam Woznica

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Plots a (modified) heatmap of the fibrosis gene data describing different genes used in various studies on fibrosis. The input dataset is prepared in the "prepare-fibrosis-data" RM workflow. Possible values in the input data are: 1 (a gene is Up regulated), -1 (Down regulated), 0 (Unmodified) and -2 (missing value). It requires the "gplots" R package.

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Adam Woznica

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Plots an attribute similarity matrix on gene data (R...

Created: 2011-05-23 13:01:44 | Last updated: 2011-05-25 15:46:10

Credits: Adam Woznica

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Plots an attribute similarity matrix computed from the provided data frame. The input dataset is prepared in the "prepare-gene-correlation" RM workflow and is assumed to contain genes as rows, and gene functions and locations as columns. In the visualized matrix columns correspond to gene locations and rows correspond to gene functions. The supported types of attribute similarities are: the covariance, the Hamming distance, and a modified Hamming distance that focuses on columns wit...

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Adam Woznica

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R library

Created: 2011-05-23 12:50:59 | Last updated: 2011-05-24 20:27:32

Credits: Adam Woznica

License: Creative Commons Attribution-Share Alike 3.0 Unported License

R library used by other R scripts.

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Adam Woznica

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RM repository directory containing data

Created: 2011-05-23 12:49:04 | Last updated: 2011-05-24 20:26:36

Credits: Adam Woznica

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Compressed directory from RM repository containing data used by the different workflows and R scirpts.

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Adam Woznica

Frequent Itemset and association rules ana... (1)

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Generates frequent itemsets and association rules from the gene data. Frequent itemsets correspond to different gene characteristics (locations and functions) that frequently occur together across different genes. The quality of a frequent itemset is given by its support which is the fraction of genes for which a given combination of gene characteristics hold; the longer the itemset the lower its support. Based on the frequent itemset this WF also generates association rules which have some...