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Workflows

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Taverna 2

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Bonilla

Pathways and Gene annotations forQTL region (1)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. 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. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2012-01-20 | Last updated: 2012-01-20

Credits: Bonilla

RapidMiner

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Ninoaf

Item rating predictions collaborative-based (1)

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This workflow takes input 2 as as train set for several item recommendation predictions. We build four different recommendation model which are combined into one model with operator Model Combiner. Then we take input 1 as a test set and apply merged model. Train and test set must contain user_id, item_id and rating attributes which need to have special roles user identification, item identification and label. This workflow uses recommender system extension.

Created: 2012-01-19

RapidMiner

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Ninoaf

Item recommendation hybrid-based workflow (1)

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This workflow takes input 2 as a train set for recommender systems. We build two item recommendation models: item k-NN (collaborative based) and item attribute k-NN (content based). Item attribute k-NN operator takes additional item attributes from input 3. We combine two models with operator model combiner and test performance on test set (input 1). Train and test set must contain user_id and item_id attributes which need to have special roles user identification and item identification. Th...

Created: 2012-01-19

KNIME

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sauberns

RDKit-bioisosteres (1)

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Implementation of a simple bioisostere replacement workflow using the RDKit (2.0.0) nodes in KNIME (2.5.1). Includes short list of classical bioisostere replacements (not exhaustive), selectable by the functional group to be transformed. We added this control to the workflow as our own internal list of bioisostere replacements generated huge libraries for each structure fed into the workflow. The bioisostere replacement list is stored in a tab separated text file, so can be replaced...