Workflows in this Topic

Cow-Human Ortholog Pathways and Gene annot... (2)

• Download

This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the cow, Bos taurus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. As the Cow genome is currently unfinished, the workflow subsequently maps the cow ensembl gene ids to human orthologues. Entrez and UniProt identifiers are then identified...

Created: 2007-10-03 | Last updated: 2009-12-03

dreseden-term-extraction1 (1)

No description

Created: 2007-11-22

Credits: Simon Jupp

Termine Webservice (1)

• Download

Termine is a service provided by the National Centre for Text Mining (NaCTeM) to assist in the discovery of terms in text. More information on the Termine service can be found here. This workflow represents the simplest method of using Termine. The input represents a text string with the output being an string containing a representation of the list of terms, with their C-Value scores (representing significance in the text), in a simple xml format. Other variations of this tools will be adde...

Created: 2008-05-19 | Last updated: 2008-05-19

Credits: Brian Rea National Centre for Text Mining (NaCTeM)

EBI_Whatizit (1)

• Download

Perform a text-mining analysis of an input text document using the EBI's Whatizit tool (http://www.ebi.ac.uk/webservices/whatizit/info.jsf). Whatizit provides a number of text-mining pipelines which can can detect various terms of biological interest in text documents. For example finding gene names and mapping them to UniProtKB identifiers, finding chemical terms and mapping them to ChEBI, etc.

Created: 2008-07-09

Credits: Hamish McWilliam

extract_uniprot_embl_gi.xml (1)

• Download

No description

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: Paul Fisher

Ensembl_id_2_Swissport_id.xml (1)

• Download

No description

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: Paul Fisher

genes_from_probesets.xml (1)

• Download

No description

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: Paul Fisher

genomic_sequence.xml (1)

• Download

No description

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: Paul Fisher

Execute cmd line app - unix - /bin/ls -R o... (1)

• Download

Note that this workflow only works on Unix systems. The get_temporary_directory beanshell returns the path to the directory in which temporary files are held. This value is passed to the create_and_populate_list beanshell which creates a list of '-R' and the path. The resultant list is passed to the args port of the Execute_cmd_line_app service. The command port of that service has been defaulted to '/bin/ls'. The execute_cmd_line_app service runs the /bin/ls -R command on the temporary ...

Created: 2008-09-27

Credits: Alan Williams

color_pathway_by_elements (2)

• Download

Color the objects (rectangles and circles on a pathway map) corresponding to the given 'element_id_list' with the specified colors and return the URL of the colored image. Example of inputs: pathway_id: path:bsu00010 element_list: (to add as list) 78 79 fg_color_list:(to add as list) red blue bg_color_list: (to add as list) green yellow

Created: 2008-09-30 | Last updated: 2008-10-01

Credits: Franck Tanoh

SigWin-detector Config-Basic (2)

• Download

Detects significant windows in a sequence. Input: A space-delimited file with (at least) one column containing the input sequence E= {E1, E2, …, EN}. A two-line header should precede the data. Input file example. Output: (1) A file containing the detected significant windows for each label. Each data row represents a stretch of consecutive significant windows. Column 1 gives the window size and columns 2 and 3 give the first and last significant windows in the stretch. Output file e...

Created: 2009-10-09 | Last updated: 2010-04-23

Credits: Adambel

caDSR metadata query in caGrid (1)

• Download

This workflow shows the coordinated use of two services in CaGrid, i.e., the caDSR (Cancer Data Standards Repository) and EVS (Enterprise Vocabulary Services) services. caDSR is to define a comprehensive set of standardized metadata descriptors for cancer research terminology used in information collection and analysis. EVS provides resources and services to meet NCI needs for controlled terminology, and to facilitate the standardization of terminology and information systems across the Insti...

Created: 2008-12-05 | Last updated: 2008-12-05

Credits: Wei Tan

hierarchical microarray clustering (1)

• Download

To illustrate our caGrid plug-in’s application, we tested it with a microarray hierarchical clustering workflow that involves services hosted at multiple institutions. Microarrays are a high-throughput technology used to measure the expression of tens of thousands of genes in different tissues or cells. Scientists represent the data from each microarray via a vector (profile) in which each element represents a gene’s expression level. They use clustering analysis to identify sim...

Created: 2008-12-05 | Last updated: 2008-12-05

Credits: Wei Tan

Using CQL to query protein sequence data (1)

• Download

To query protein sequence infomation out of 3 caGrid data services: caBIO, CPAS and GridPIR. Scientific value To query protein sequence information out of 3 caGrid data services: caBIO, CPAS and GridPIR. To analyze a protein sequence from different data sources. Steps Querying CPAS and get the id, name, value of the sequence. Querying caBIO and GridPIR using the id or name obtained from CPAS.    

Created: 2008-12-05 | Last updated: 2009-07-14

Credits: Wei Tan

Lymphoma type prediction based on microar... (7)

• Download

Scientific value Using gene-expression patterns associated with DLBCL and FL to predict the lymphoma type of an unknown sample. Using SVM (Support Vector Machine) to classify data, and predicting the tumor types of unknown examples. Steps Querying training data from experiments stored in caArray. Preprocessing, or normalize the microarray data. Adding training and testing data into SVM service to get classification result.

Created: 2010-05-11 | Last updated: 2010-05-11

Credits: Wei Tan Ravi Stian Soiland-Reyes

Using CQL to query protein sequence data (1)

• Download

To query protein sequence infomation out of 3 caGrid data services: caBIO, CPAS and GridPIR Adapted from http://www.myexperiment.org/workflows/600

Created: 2009-05-07

Credits: Stian Soiland-Reyes

Attributions: Using CQL to query protein sequence data

group difference pseudopotential (1)

• Download

This is a Nimrod plan file for a parameter scan of a group difference pseudopotential (GDP). This is the initial step in "paremeterization of a capping atom for hybrid quantum mechanics-molecule mechanics (QM/MM) calculations." Based on paper by Sudholt, W., Baldridge, K., Abramson, D., Enticott, C. and Garic, S., “Application of Grid computing to parameter sweeps and optimizations in molecular modeling”, Future Generation Computer Systems, 21 (2005), 27-35. Also appeare...

Created: 2009-05-14 | Last updated: 2009-05-16

FirstExampleWorkflow (1)

This is my first test example of Taverna Workflow.

Created: 2009-06-24

Credits: Jelena (Obradovic) Dreskai

Term Extraction with NaCTeM's TerMine Tool (2)

• Download

Pass in text and retrieve a list of terms discovered ranked by their importance within the text.

Created: 2009-07-23

Credits: Brian Rea National Centre for Text Mining (NaCTeM)

An example workflow with WSRF service (1)

• Download

An example workflow with WSRF service The service used is http://sidgrid.ci.uchicago.edu:8100/wsrf/services/CounterService The service is included in Globus toolkit installation (ws-core). If the it is down you can host your own and modify the workflow definition file to point to your own. The workflow first creates a counter instance and adds the value 10 for two times to the same counter. Therefore the result should be 20.

Created: 2009-07-28

Credits: Wei Tan Stian Soiland-Reyes

caDSR Data service query in caGrid (3)

• Download

This workflow is used as an example in this wiki article: https://wiki.cagrid.org/display/knowledgebase/How+to+Create+CaGrid+Workflow+Using+Taverna+2   Tested with Taverna 2.1.2 as of 6/10/2010

Created: 2010-05-25 | Last updated: 2010-06-11

Credits: Wei Tan

caArray data retrieving (1)

• Download

Query all the gene expression data in a caArray experiment. Returns a evenly divided gene expression data set with corresponding class information. They ca be later used as training and test data set in many classification algorithms.Query all the gene expression data in a caArray experiment. Returns a evenly divided gene expression data set with corresponding class information. They can be later used as training and test data set in many classification algorithms.

Created: 2009-11-23

Credits: Wei Tan

genePattern data preprocessing (2)

• Download

preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the default preprocess data set using genePattern preProces service, the input should be in genePattern STATML format.preprocess data set using genePattern preProces service, the input should be in genePattern STATML format. Configuration parameters can be adjusted by changing the string constants.

Created: 2010-05-24 | Last updated: 2010-05-24

Credits: Wei Tan

Support-Vector-Machine (SVM) based data cl... (2)

• Download

Support-Vector-Machine based data classificationSupport-Vector-Machine based data classification using genePattern SVM service, the input should be in genePattern STATML format.

Created: 2010-05-24 | Last updated: 2010-05-24

Credits: Wei Tan

Get locations from postcode (1)

• Download

 This workflow will return all the areas that correspond to a postcode. Enter the first part of the postcode only, e.g. SW19

Created: 2010-03-08 | Last updated: 2010-03-08

Credits: Rory

Parse unique proteins from Blast file (1)

• Download

The workflow parses uses the blast results to determine the unique proteins found in the target genome that have no similairty to the source genome. Using these unique protein ids, and the original target protein fasta file, a fasta file of unique proteins is created.

Created: 2010-03-19 | Last updated: 2010-03-19

Credits: Ian Laycock nclteamc

Retrieve all data for all instruments for ... (3)

• Download

This workflow looks up all instruments known to have worked during the requested periode of time (ICS), restructures results to make them fit instruments.xsd and requests data for this periode from DPAS. Result: VOTable with list of URLs to data.

Created: 2010-04-15 | Last updated: 2010-08-09

Credits: Anja Le Blanc

Attributions: Extracting data from VOTable format by using XPath query

Query caArray data service and retrieving ... (2)

• Download

need to install Taverna 2 caGrid integration suite from http://www.mcs.anl.gov/~wtan/t2/ and get a cagrid Dorian account (see http://wiki.cagrid.org/display/caGrid13/Home)

Created: 2010-05-24 | Last updated: 2010-05-24

Credits: Wei Tan

Federated query using DCQL and credential ... (2)

• Download

CDS_Activity issues an EPR of the delegated credential. FQP uses this EPR to fetch the actual delegated credential from CDS and uses it to invoke multiple data services (the query activity) on behalf of the invoker. CDS_Activity issues an EPR of the delegated credential. FQP uses this EPR to fetch the actual delegated credential from CDS and uses it to invoke multiple data services (the query activity) on behalf of the invoker. Need to install Taverna 2 caGrid integration suite from http://ww...

Created: 2010-05-11 | Last updated: 2010-11-05

Credits: Wei Tan

Invoke a secured caGrid service: caTissue (2)

• Download

No description

Created: 2010-05-24 | Last updated: 2010-11-05

Credits: Wei Tan

A simple CQL query workflow in caGrid (1)

• Download

1. CQL is a language to query data from caGrid/caBIG services. This workflow is tested with Taverna 2.1.2 and the caGrid Workflow Suite downloadable from http://www.mcs.anl.gov/~wtan/t2/. 2.More information regarding CQL can be found from http://wiki.cagrid.org/display/dataservices. 3. Sample input (95) is provided in the workflow. It is to query all the hybridization data within a microarray experiment whose id is 95.

Created: 2010-05-24 | Last updated: 2010-05-25

Credits: Wei Tan

CamelCases (1)

• Download

this process splits up camelcases

Created: 2010-06-02

Connect to twitter and analyze the key words (1)

• Download

Hi All, This workflow connects RapidMiner to Twitter and downloads the timeline. It then creates a wordlist from the tweets and breaks them into key words that are mentioned in the tweets. You can then visualize the key words mentioned in the tweets. This workflow can be further modified to review various key events that have been talked about in the twitterland. Do let me know your feedback and feel free to ask me any questions that you may have. Shaily web: http://advanced-analyti...

Created: 2010-07-26 | Last updated: 2010-07-26

Testing caBIG workflow (1)

• Download

An example workflow to test the installation of caGrid Workflow Suite and the submission of a workflow to a caGrid workflow service.

Created: 2010-08-17 | Last updated: 2010-08-17

Credits: Wei Tan

Principle Component Analysis (PCA) over mi... (1)

• Download

Principle Component Analysis (PCA) over microarray data. Data is uploaded through caGrid transfer ultility.

Created: 2010-09-10 | Last updated: 2010-09-10

Credits: Wei Tan

From PDF to lemmatized text (1)

• Download

This workflow uses the web service stationed in JSI (IJS Slovenia), which is based on Matjaž Juršič's LemmaGen - lemmatization engine. The workflow accepts a PDF file as an input an uses James Eales's wrokflows to preprocess the data. The workflow interactively asks the user of which language is the text, since the lemmatization process is language based. The output is a string in Taverna Workbench.

Created: 2010-09-16 | Last updated: 2012-01-18

Credits: Netr James Eales

Attributions: PDF to plain text Clean plain text

Lemmatization (3)

• Download

The workflow lemmatizes the text in the input port. Takes text as input and returns (language dependent) lemmatized text as output. All the words in the resulting text are in the same order as in the original text, but they are transformed to their dictionary form. The workflow asks for the language of lemmatization. Currently, 12 languages are supported: en,sl,ge,bg,cs,et,fr,hu,ro,sr,it,sp.

Created: 2010-12-17 | Last updated: 2010-12-23

Credits: Petra Kralj Novak

Attributions: Select from a list of possible web service parameter values

Random recommender (1)

• Download

This process does a random item recommendation; for a given item ID, from the example set of items, it randomly recommends a desired number of items. The purpose of this workflow is to produce a random recommendation baseline for comparison with different recommendation solutions, on different retrieval measures. The inputs to the process are context defined macros: %{id} defines an item ID for which we would like to obtain recommendation and %{recommender_no} defines the required number of ...

Created: 2011-03-15 | Last updated: 2011-03-15

Item to item similarity matrix -based reco... (1)

• Download

This process executes the recommendation based on item to item similarity matrix. The inputs to the process are context defined macros: %{id} defines an item ID for which we would like to obtain recommendation and %{recommender_no} defines the required number of recommendations. The process internally uses an item to item similarity matrix written in pairwise form (id1, id2, similarity). The process essentially filters out appearances of the required ID in both of the columns of the pairwis...

Created: 2011-03-15 | Last updated: 2011-03-15

Content based recommender (1)

• Download

This process is a special case of the item to item similarity matrix based recommender where the item to item similarity is calculated as cosine similarity over TF-IDF word vectors obtained from the textual analysis over all the available textual data. The inputs to the process are context defined macros: %{id} defines an item ID for which we would like to obtain recommendation and %{recommender_no} defines the required number of recommendations. The process internally uses an example set of...

Created: 2011-03-15 | Last updated: 2011-03-15

Collaborative filtering recommender (1)

• Download

This process executes a collaborative filtering recommender based on user to item score matrix. This recommender predicts one user’s score on some of his non scored items based on similarity with other users. The inputs to the process are context defined macros: %{id} defines an item ID for which we would like to obtain recommendation and %{recommender_no} defines the required number of recommendations and %{number_of_neighbors} defines the number of the most similar users taken into a...

Created: 2011-03-15 | Last updated: 2012-03-06

GRASS-GIS orchestration using pyWPS (2)

• Download

Generic workflow that run r.watershed, with auxiliary services: r.math and geotiff2png. Watershed accumulation is calculated from DEM using r.watershed, the accumulation result is then filtered using r.math with equation:output=(if(a>10,a,null())) Generic workflow that run r.watershed, with auxiliary services: r.math and geotiff2png. Watershed accumulation is calculated from DEM using r.watershed, the accumulation result is then filtered using r.math with equation: output=(if(a>10,...

Created: 2011-04-18 | Last updated: 2011-04-25

Credits: Jorgejesus

Content based recommender system template (1)

• Download

As an input, this workflow takes two distinct example sets: a complete set of items with IDs and appropriate textual attributes (item example set) and a set of IDs of items our user had interaction with (user example set). Also, a macro %{recommendation_no} is defined in the process context, as a required number of outputted recommendations. The first steps of the workflow are to preprocess those example sets; select only textual attributes of item example set, and set ID roles on both of th...

Created: 2011-05-05 | Last updated: 2011-05-09

Credits: Matko Bošnjak Ninoaf

Attributions: Datasets for the pack: RCOMM2011 recommender systems workflow templates

User-based collaborative filtering recomme... (1)

• Download

The workflow for user-based collaborative filtering, takes only one example set as an input: a user-item matrix, where the attributes denote item IDs, and rows denote users. If a user i has rated an item j with a score s, the matrix will have the value s written in i-th row and j-th column. In the context of the process we define the ID of the user %{id}, desired number of recommendations %{recommendation_no}, and the number of neighbors used in ca...

Created: 2011-05-05 | Last updated: 2011-05-09

Credits: Matko Bošnjak Ninoaf

Attributions: Datasets for the pack: RCOMM2011 recommender systems workflow templates

Item-based collaborative filtering recomme... (1)

• Download

The workflow for item-based collaborative filtering receives a user-item matrix for its input, and the same context defined macros as the user-based recommender template, namely %{id}, %{recommendation_no}, and %{number_of_neighbors}. Although this process is in theory very similar to user-based technique, it differs in several processing steps since we are dealing with an item-user matrix, the transposed user-item example set. The first step of the workflow, after declaring zero values miss...

Created: 2011-05-05 | Last updated: 2011-05-09

Credits: Matko Bošnjak Ninoaf

Attributions: Datasets for the pack: RCOMM2011 recommender systems workflow templates

LSI content based recommender system template (1)

• Download

This workflow performs LSI text-mining content based recommendation. We use SVD to capture latent semantics between items and words and to obtain low-dimensional representation of items. Latent Semantic Indexing (LSI) takes k greatest singular values and left and right singular vectors to obtain matrix  A_k=U_k * S_k * V_k^T. Items are represented as word-vectors in the original space, where each row in matrix A represents word-vector of particular item. Matrix U_k, on the other hand ...

Created: 2011-05-06 | Last updated: 2011-05-09

Credits: Ninoaf Matko Bošnjak

Attributions: Content based recommender system template Datasets for the pack: RCOMM2011 recommender systems workflow templates

SVD user-based collaborative filtering rec... (1)

• Download

This workflow takes user-item matrix A as a input. Then it calculates reduced SVD decomposition A_k by taking only k greatest singular values and corresponding singular vectors. This worfkflow calculates recommendations and predictions for particular user %{id} from matrix A. Particular row %{id} is taken from original matrix A and replaced with %{id} row in A_k matrix. Predictions are made for %{id} user based on another users A_k. Note: This workflow uses R-script operator with R library ...

Created: 2011-05-09 | Last updated: 2011-05-09

Credits: Ninoaf Matko Bošnjak

Attributions: User-based collaborative filtering recommender system template Datasets for the pack: RCOMM2011 recommender systems workflow templates

Sequence Format Conversion (1)

• Download

Demonstrate the use of the format conversion tool. Converts a DNA sequence in fasta format into plain, genbank, and phylip formats.

Created: 2011-06-28 | Last updated: 2011-06-28

Credits: Carol Lushbough

Statistics example (1)

• Download

This workflow allows one to find the average and standard deviation of a set of values.

Created: 2011-09-21 | Last updated: 2011-09-21

Credits: Wdsnellg

Concatenated List of Values (1)

• Download

This workflow takes multiple lists of values and finds the standard deviation and average of the provided values. It then concatenates each value into a single string.

Created: 2011-09-21 | Last updated: 2011-09-21

Credits: tpacurtis

New York vs. New Jersey Broccoli Production (1)

• Download

Uses the SpreadsheetImport service to import data from an Excel spreadsheet. The workflow imports two files and generates a single graph comparing the information from the two spreadsheets.

Created: 2011-09-21 | Last updated: 2011-09-21

Credits: tpacurtis Alan Williams

Attributions: Spreadsheet Import Example NY Broccoli Production NJ Broccoli Production

Simple addition Kepler workflow expanded (1)

• Download

This Kepler allows one to perform mathematical equations, including addition, subtraction, muliplication, and division. 

Created: 2011-09-27 | Last updated: 2011-09-27

Credits: Wdsnellg

FFmpeg convert audio2aac (REST) (1)

• Download

Converts supported audio files to AAC using FFmpeg through a REST webservice.

Created: 2012-01-16 | Last updated: 2012-01-16

Credits: Rui Castro

Iterate through datasets (1)

• Download

This is a dataset iteration workflow. It is a part of Experimentation workflow for recommender extension. Loop FIles operator iterates through datasets from a specified directory using read aml operator. Only datasets specified with a proper regular expression are considered. Train and test data filenames must correspond e.g (train1.aml, test1.aml). In each iteration Loop Files calles specified operator testing workflow with Execute subprocess operator. Informations about training and t...

Created: 2012-01-29

Credits: Matej Mihelčić Matko Bošnjak

Metafeature extraction (1)

• Download

This is a metafeature extraction workflow used in Experimentation workflow for recommender extension operators. This workflow extracts metadata from the train/test datasets (user/item counts, rating count, sparsity etc). This workflow is called from the operator testing workflow using Execute Process operator.

Created: 2012-01-29 | Last updated: 2012-01-30

Credits: Matko Bošnjak

Operator testing workflow (1)

• Download

This workflow is used for operator testing. It joins dataset metafeatures with execution times and performanse measures of the selected recommendation operator. In the Extract train and Extract test Execute Process operator user should open Metafeature extraction workflow. In the Loop Operator train/test data are used to evaluate performanse of the selected operator. Result is remebered and joined with the time and metafeature informations. This workflow can be used both for Item Recommend...

Created: 2012-01-29

Credits: Matej Mihelčić Matko Bošnjak

Semantic clustering (with alpha-clustering... (1)

• Download

The workflow uses RapidMiner extension named RMonto (http://semantic.cs.put.poznan.pl/RMonto/) to perform clustering of SPARQL query results based on chosen semantic similarity measure. The measure used in this particualr workflow is a kernel that exploits membership of clustered individuals to OWL classes from a background ontology ("Epistemic" kernel from [1]). Since the semantics of the backgound ontology is used in this way, we use the name "semantic clustering". This ...

Created: 2012-01-29 | Last updated: 2012-01-30

Recommender workflow (1)

• Download

This is a main online update experimentation workflow. It consists of three Execute Process operators. First operator executes model training workflow. Second operator executes online updates workflow for multiple query update sets. The last operator executes performance testing and comparison workflow. Final performance results are saved in an Excel file.

Created: 2012-01-29

Credits: Matej Mihelčić

Model saving workflow (1)

• Download

This workflow trains and saves a model for a selected item recommendation operator.

Created: 2012-01-29 | Last updated: 2012-01-30

Credits: Matej Mihelčić

Model testing workflow (1)

• Download

This workflow measures performance of three models. Model learned on train data and upgraded using online model updates. Model learned on train data + all query update sets. Model learned on train data only.

Created: 2012-01-29

Credits: Matej Mihelčić

Data iteration workflow (1)

• Download

This is a data iteration workflow used to iterate throug query update sets.

Created: 2012-01-29

Credits: Matej Mihelčić Matko Bošnjak

Model update workflow (1)

• Download

This is a Model update workflow called from data iteration workflow on every given query set. In the Loop operator model and current training set are retrieved from the repository. Model update is performed on a given query set creating new model. Model and updated train set are saved in the repository.

Created: 2012-01-29 | Last updated: 2012-01-29

Credits: Matej Mihelčić Matko Bošnjak

Model saving workflow (RP) (1)

• Download

This workflow trains and saves model for a selected rating prediction operator.

Created: 2012-01-29 | Last updated: 2012-01-30

Credits: Matej Mihelčić

Model testing workflow (RP) (1)

• Download

This workflow measures performance of three models. Model learned on train data and upgraded using online model updates. Model learned on train data + all query update sets. Model learned on train data only.

Created: 2012-01-29 | Last updated: 2012-01-30

Credits: Matej Mihelčić

recommender workflow (RP) (1)

• Download

This is a main online update experimentation workflow. It consists of three Execute Process operators. First operator executes model training workflow. Second operator executes online updates workflow for multiple query update sets. The last operator executes performance testing and comparison workflow. Final performance results are saved in an Excel file.

Created: 2012-01-29

Credits: Matej Mihelčić

Model update workflow (RP) (1)

• Download

This is a Model update workflow called from data iteration workflow on every given query set. In the Loop operator model and current training set are retrieved from the repository. Model update is performed on a given query set creating new model. Model and updated train set are saved in the repository.

Created: 2012-01-29 | Last updated: 2012-01-30

Credits: Matej Mihelčić

Data iteration workflow (RP) (1)

• Download

This is a data iteration workflow used to iterate throug query update sets.

Created: 2012-01-29

Credits: Matej Mihelčić Matko Bošnjak

document clustering (1)

• Download

Tesla Experiment Clustering wikipedia articles of different topics Evaluation of the results with the purity measure and rand index

Created: 2012-02-15 | Last updated: 2012-02-17

Credits: AGeduldig

VAMDC VALD query with SME processing (2)

• Download

VAMDC workflow that queries the VALD Atomic database in Moscow and runs SME (Spectroscopy Made Easy) VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide

Created: 2012-02-24 | Last updated: 2012-09-12

VAMDC VALD query with SME processing (4)

• Download

VAMDC workflow that queries the VALD Atomic database in Moscow and runs SME (Spectroscopy Made Easy) VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide

Created: 2012-03-07 | Last updated: 2012-11-29

Credits: Stormshadow Virtual Atomic and Molecular Data Centre - VAMDC

Workflow to Query TAP-XSAMS node. (3)

• Download

Workflow to just one TAP-XSAMS Node. This workflow queries the Hitran Node for MoleculeChemicalName of 'HF' VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide

Created: 2012-03-07 | Last updated: 2012-09-12

Credits: Stormshadow

VAMDC to query on ChemicalName 'OR' Stoich... (4)

• Download

Workflow to query just one TAP-XSAMS Node. This workflow queries the Hitran Node for MoleculeChemicalName of 'HF' and StoichimetricFormula of 'HV' Demonstrates building a query for two Restrictables. VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide

Created: 2012-03-07 | Last updated: 2012-09-12

Credits: Stormshadow Virtual Atomic and Molecular Data Centre - VAMDC

VAMDC Query to Two Nodes using HTML Consum... (2)

• Download

Workflow to two TAP-XSAMS Node and see results in a HTML view using a Consumer Service. This workflow queries the Hitran and CDMS Node for MoleculeStoichiometricForumua of 'CO' VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide

Created: 2012-03-07 | Last updated: 2012-09-12

Credits: Stormshadow Virtual Atomic and Molecular Data Centre - VAMDC

VAMDC SpectCol tool using Full VAMDC-Tap Q... (2)

• Download

Runs the SpectCol tool bundled with the plugin and can handle a list of URLS. This version asks for the full vamdc URL. SpectCol information: SPECTCOL is a tool that implements VAMDC standards, r etrieve relevant information from different databases such as CDMS, HITRAN, BASECOL, and can upload local files. All transfer of data between the client and the databases use the VAMDC-XSAMS schema. The spectroscopic and collisional information is combined and useful outputs (ascii or xsams) are ...

Created: 2012-03-07 | Last updated: 2012-09-12

Credits: Stormshadow

VAMDC Query to Two Nodes using HTML Consum... (2)

• Download

Workflow to two TAP-XSAMS Node and see results in a HTML view using a Consumer Service. This workflow queries the BaseCol and CDMS Node for MoleculeStoichiometricForumua of 'CO' VAMDC Taverna Plugin: http://voparis-twiki.obspm.fr/twiki/bin/view/VAMDC/TavernaUserGuide **NOTE an update to the plugin will need to be released later to handle prefixes on certain query nodes and their restrictables. For instance BaseCol expects 'Target.MoleculeStoichiometricFormula' instead of just 'MoleculeSto...

Created: 2012-03-07 | Last updated: 2012-09-12

Credits: Stormshadow Virtual Atomic and Molecular Data Centre - VAMDC

Hybrid recommendation system (1)

• Download

This is one hybrid recommendation system combining linear regression recommender, created using RapidMiner core operators, and Recommender extension multiple collaborative filtering and attribute based operators.

Created: 2012-05-17

Credits: Matej Mihelčić Matko Bošnjak

Get concept information (5)

• Download

The workflow takes a (list of) concept ID(s) as input and returns the profile, ID, definition and name of the concept.

Created: 2012-07-06 | Last updated: 2014-07-14

Credits: Kristina Hettne Reinout van Schouwen Marco Roos Martijn Schuemie BioSemantics