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Blob An Iterative GASVM-Based Method: Gene Selection and ...

Created: 2012-05-11 02:00:37

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 Microarray technology has provided biologists with the ability to measure the expression levels of thousands of genes in a single experiment. One of the urgent issues in the use of microarray data is the selection of a smaller subset of genes from the thousands of genes in the data that contributes to a disease. This selection process is difficult due to many irrelevant genes, noisy genes, and the availability of the small number of samples compared to the huge number of genes (hi...

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Blob An Improved Binary Particle Swarm Optimisation for G...

Created: 2012-05-11 01:58:19

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 The application of microarray data for cancer classification has recently gained in popularity. The main problem that needs to be addressed is the selection of a smaller subset of genes from the thousands of genes in the data that contributes to a disease. This selection process is difficult because of the availability of the small number of samples compared to the huge number of genes, many irrelevant genes, and noisy genes. Therefore, this paper proposes an improved binary parti...

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Blob An Image Registration Technique To Enhance PCB Inspe...

Created: 2012-05-11 01:56:19

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 is well k*atm that renl PCB inuge inipieetio* bwal 0n rclerential ap: proaches foces misalignment problems in detecting delects betwecn a template imoge arul a ilefectiae image. Hence, o reliable image registrtion techniqre is needed to aligt, these two irnages per{utly. Henre, a rqistrution trch*irye uhich inaryorvtes affme trcnsformotion anil bi-cubic interynlation has been prcposed. Etperimental rcsults haae shown that this regishation techniqte is suitoble to be employei to obt...

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Blob A Two-Step Binary Particle Swarm Optimization Approa...

Created: 2012-05-11 01:52:33 | Last updated: 2012-05-11 01:52:34

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 Manipitetibn of wdre itzing, buffer sizing, and futffer inseriiai atu a few techniques that con be used to i,mproae tfune d,eloy 'in aery lorge su,le intqrction (VLSI) circuit routing- Thi* paper enhances an eri,sting approach, which is based on Particl,e Swarrn Optimization (PSO) fur sofuing rcuting poblem in VLil circaits. A hoo-step Binary Particle Swarm Optimizatdon (BPSO) apprcach, which is based on BPSO, is chosen in thi^s stuily to improue time ilelay through finding the bes...

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Blob A Study of Network-based Approach for Cancer Classif...

Created: 2012-05-11 01:49:20 | Last updated: 2012-05-11 01:49:21

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 The advent of high-throughput techniques such as microarray data enabled researchers to elucidate process in a cell that fruitfully useful for pathological and medical. For such opportunities, microarray gene expression data have been explored and applied for various types of studies e.g. gene association, gene classification and construction of gene network. Unfortunately, since gene expression data naturally have a few of samples and thousands of genes, this leads to a biologi...

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Blob A Parallelizing Interface for K-Means Type Clusterin...

Created: 2012-05-11 01:46:24

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 The k-means clustering algorithm and neural network batch training becomes computationally intensive when the manipulated data is large. One way to reduce the computational demand of such techniques is to execute them in a concurrent manner. Unfortunately, the effort required to implement these techniques in a distributed computing environment remains daunting. Much of the work takes place when partitioning and distributing workloads over processors in the distributed computing environm...

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Blob A New Hybrid Firefly Algorithm for Complex and Nonli...

Created: 2012-05-11 01:44:17 | Last updated: 2012-05-11 01:44:18

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 Global optimization methods play an important role to solve many real-world problems. However, the implementation of single methods is excessively preventive for high dimensionality and nonlinear problems, especially in term of the accuracy of finding best solutions and convergence speed performance. In recent years, hybrid optimization methods have shown potential achievements to overcome such challenges. In this paper, a new hybrid optimization method called Hybrid Evolutionary ...

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Blob A Hybrid of SVM and SCAD with Group-specific Tuning ...

Created: 2012-05-11 01:39:36

Credits: User Mohd Saberi

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 The incorporation of pathway data into the microarray analysis had lead to a new era in advance understanding of biological processes. However, this advancement is limited by the two issues in quality of pathway data. First, the pathway data are usually made from the biological context free, when it comes to a specific cellular process (e.g. lung cancer development), it can be that only several genes within pathways are responsible for the corresponding cellular process. Second, p...

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RapidMiner
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3682?size=60x60 Hr Matija Piskorec

Workflow Calibration for execution time extension (1)

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 Benchmark workflow that loops Naive Bayes operator many times and provides estimate of the system's overall performance.

Created: 2012-05-10 | Last updated: 2012-05-10

Taverna 2
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9?size=60x60 Gb Stian Soiland-Reyes

Workflow Extract DEC and RA from whitespace separat... (2)

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This workflow extracts DEC and RA coordinates from a whitespace seperated file and this is a silly description.

Created: 2012-05-10 | Last updated: 2012-09-24

Credits: User Stian Soiland-Reyes

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Avatar Cn Momo66323
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Blob ir

Created: 2012-05-10 13:55:41

Credits: User Momo66323

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 it test

File type: PowerPoint 2007 presentation

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2615?size=60x60 Hr Ninoaf
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Blob Dataset for Simple RS Web Service

Created: 2012-05-10 12:01:26 | Last updated: 2012-05-10 12:01:27

Credits: User Ninoaf

License: Creative Commons Attribution-Share Alike 3.0 Unported License

 This is the dataset that is used by process: http://www.myexperiment.org/workflows/2901.html  

File type: Trident (Package)

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2615?size=60x60 Hr Ninoaf

Workflow Simple Recommender System Web Service (1)

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 This workflow takes macro value of user request and computes top-n recommendations from already learned model on train set. Macro value is transformed to example set with the appropriate \textit{user identification} role within \textit{ProcessInput} subprocess operator.   Simple recommendation web service workflow takes three inputs: \begin{enumerate} \item Macro value \textit{user} - identification number of user request \item Train set from RM repository \item Learned Mo...

Created: 2012-05-10 | Last updated: 2012-05-10

Taverna 2
Uploader
3505?size=60x60 At Markus Plangg

Workflow Simple image migration (1)

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Then starts a migration action on an image and extracts properties from the original and migrated image. The properties are compared and a QA algorithms is started on the image data itself .

Created: 2012-05-08 | Last updated: 2012-05-08

Credits: User Markus Plangg

Taverna 2
Uploader
9?size=60x60 Gb Stian Soiland-Reyes

Workflow Find workflow ancestors (2)

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Given a t2flow file (Taverna 2 workflow), extract ancestor workflow UUIDs and search myExperiment for matching workflow entries. Note that this will also match the workflow itself and nested workflows, but does not match against other workflows having the same ancestors (but newer UUIDs).

Created: 2012-05-08 | Last updated: 2012-07-09

Credits: User Stian Soiland-Reyes

Taverna 2
Uploader
9?size=60x60 Gb Stian Soiland-Reyes

Workflow Check Java Cryptography Unlimited Strength (1)

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Checks if Java Cryptography Extension (JCE) Unlimited Strength Jurisdiction Policy Files is installed, and redirects user to correct download page and relevant lib/security folder if not.

Created: 2012-05-08 | Last updated: 2012-05-08

Credits: User Stian Soiland-Reyes

Attributions: Workflow Find/show Taverna's home directory

Taverna 2
Uploader
3646?size=60x60 Gb BioCo Consultants

Workflow extractGInumber (1)

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 This workflow uses regex pattern to compare the identity percentage of each hits against the input sequnece and return the whole information of the hits and the GI number of them (if they including the GI number as a sub information)   inputfileURL:  the location of the Gi number   outputText  : the list of all the hits and the GI number of them

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User BioCo Consultants

Taverna 2
Uploader
3646?size=60x60 Gb BioCo Consultants

Workflow filterDifferenceInLists (1)

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 This workflow output a list of the protein or any string hits in the first list but not in the second list.    output : output file location com : comparision protein list our : interested protein list out1: output as a string

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User BioCo Consultants

Taverna 2
Uploader
3646?size=60x60 Gb BioCo Consultants

Workflow ConcatStringTogether (1)

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 This workflow is as simple as you can imagine! It can be used to remove the information tags in a fasta file and concat the sequence together   fastaURL :  the input fasta reads file location seqURL : the outcome sequence file location wholeSeq : the output sequence as an entire string

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User BioCo Consultants

Taverna 2
Uploader
3646?size=60x60 Gb BioCo Consultants

Workflow generateWholeSeqAnnotation (1)

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 This work flow is used for genereating all the known genes together to annotate a whole or a large region of genome sequence.   outputfilrURL:  the location of the output file Ginumber:   the input gi gene number wholeGenomeSeq:    the whold sequence annotation information output:    the output of genbank text

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User BioCo Consultants

Taverna 2
Uploader
3646?size=60x60 Gb BioCo Consultants

Workflow Get top blastx hit of a list of contigs (1)

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This workflow takes a contigs.fasta file , gets all the ORF's present in it , runs blastx on each ORF, gets the FASTA file of the top blastX hit and its GI number.

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User BioCo Consultants

Taverna 2
Uploader
Avatar Georgeg9

Workflow FINAL VERSION (1)

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 From genome to genbank file and annotations Manual and documentation at: http://www.students.ncl.ac.uk/g.georgiou/newweb/

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User Georgeg9 Network-member BioGreen Ltd.

Attributions: Workflow Convert to KEGG ID Workflow NCBI Gi to Kegg Pathways Workflow EBI_NCBI_BLAST Workflow EBI_InterproScan_NewServices

Taverna 2
Uploader
Avatar Georgeg9

Workflow Run on amazon cloud (1)

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 Execute commands on amazon cloud machines Manual and documentation at: http://www.students.ncl.ac.uk/g.georgiou/newweb/

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User Georgeg9 Network-member BioGreen Ltd.

Taverna 2
Uploader
3671?size=60x60 Junzhao

Workflow Search for Gene Expression Images using an... (1)

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This is a simple workflow demonstrating how to integrate multiple linked data sources using restful services in Taverna. In this workflow it first searches for all possible gene names for a query gene from FlyBase repository, an authorative genetic database for Drosophila research, and then it uses returned gene names to search for gene expression images from Oxford FlyTED image repository. Two Restful services were used: One for retrieving all flybase features matching a querying ge...

Created: 2012-05-04 | Last updated: 2012-05-08

Credits: User Junzhao

Taverna 2
Uploader
3671?size=60x60 Junzhao

Workflow Get Alternative Gene Names for a Drosophil... (1)

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This is a simple workflow testing running a restful service in Taverna. This restful service http://www.open-biomed.org.uk/service/flybase/features/name/{name} is part of the flykit/flybase services http://code.google.com/p/open-biomed/wiki/Flybase, which is built using the Talis Puelia Linked Data API (http://code.google.com/p/puelia-php/). We want to use this simple workflow to test the idea of bridging linked data and scientific workflows using Restful services. A test input gene name...

Created: 2012-05-04 | Last updated: 2012-05-04

Credits: User Junzhao

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