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Life Sciences
Life science Education Chemistry Cheminformatics Component Visualization Machine learning Interactive view
  1. Go to item
    Workflow
    ML Prototyping for Bioactivity Data
    Cheminformatics Webportal Data Visualization
    +7
    This workflow demonstrates model building for a bioactivity data set with several machine learning methods and binary fingerprint…
    knime > Life Sciences > Events > 2021_03_03_Cheminformatics_with_KNIME_Webinar > ML Prototyping for Bioactivity Data
    7
    knime
  2. Go to item
    Workflow
    Gut Microbiome Analysis of IBD Patients (16S)
    Life sciences Bioinformatics Metagenomics
    +4
    This workflow investigates the composition of gut microbial communities from individuals with inflammatory bowl disease (IBD). Sa…
    knime > Life Sciences > Bioinformatics > Microbiome_Analysis
    3
    knime
  3. Go to item
    Workflow
    Reproducible Variant Prioritization
    Bioinformatics Life Sciences Genetic Variation
    Finding disease-causal variants among large amounts of present variants remains a major challenge in next-generation sequencing e…
    knime > Life Sciences > Bioinformatics > Variant_Prioritization
    2
    knime
  4. Go to item
    Workflow
    Tagging Genes in Disease Related Publications
    Life Sciences Ontologies RDF
    +4
    This example workflow shows how ontology terms can be used to tag biomedical literature. In the first step, the Triple File Reade…
    knime > Life Sciences > Text_Processing > Document_Tagging_Using_Ontology_Terms
    2
    knime
  5. Go to item
    Workflow
    Gene Expression Analysis
    Life Sciences Bioinformatics R
    +2
    In this workflow, we analyze RNA-Seq data from tumors and matched normal tissue from three patients with oral squamous cell carci…
    knime > Examples > 08_Other_Analytics_Types > 02_Chemistry_and_Life_Sciences > 07_Gene_Expression_Analysis
    2
    knime
  6. Go to item
    Workflow
    Column filter flow variable
    Life Sciences Flow variable Column Filter
    This workflow snippet illustrates how to filter multiple columns using a flow variable. For this, we extract the column names of …
    knime > Workflow Snippets > Column filter flow variables
    2
    knime
  7. Go to item
    Workflow
    GET Request Example (Life Sciences)
    REST Genes Life Sciences
    In this workflow snippet, we will use the REST service provided by MyGene.info [1,2] (https://mygene.info/) to obtain a list of h…
    knime > Workflow Snippets > GET Request
    2
    knime
  8. Go to item
    Workflow
    01_Chemistry_basics
    Chemistry Interactive View Life Sciences
    +1
    This workflow demonstrates basic cheminformatics functionality within KNIME Analytics Platform: Reading and writing various chemi…
    knime > Life Sciences > Events > 2021_09_13_Vienna_Summer_School > Beginners > exercises > 01_Interactive_visualization
    1
    knime
  9. Go to item
    Workflow
    Python View Example
    KDE Plot Seaborn Python
    +1
    This workflow shows how to create complex plots using your favorite python package. In this example, seaborn python package is us…
    salascorp > Public > Python View Example
    1
    salascorp
  10. Go to item
    Workflow
    Model Selection with Integrated Deployment
    Chemistry Naive bayes Random forest
    +11
    This workflow deploys an advanced parameter optimzation protocol with four machine learning methods. In this implementation the c…
    knime > Life Sciences > Events > 2020_10_Integrated_Deployment_In_Action_Webinar > Model Selection with Integrated Deployment
    1
    knime
  11. Go to item
    Workflow
    Search for Ethnicity Related Adverse Events of a Drug
    Adverse Events Life Sciences Ontologies
    This workflow allows a user to search literature to analyze relationships between adverse drug event of a certain drug and ethnic…
    knime > Digital Healthcare > Literature Search on Ethnicity related Adverse Events
    1
    knime
  12. Go to item
    Workflow
    PubMed Literature Search
    Time series PubMed Author
    +1
    This workflow is a small web application for searching publications in PubMed in a certain date range. The consumer can simply en…
    janina > Public > PubMed Literature Search
    1
    janina
  13. Go to item
    Workflow
    Aligning molecule orientation
    Life Sciences Molecules Orientation
    +1
    This workflow demonstrates how to align molecules according to a substructure, so they are all shown in the same orientation (in …
    knime > Workflow Snippets > Align the orientation of molecules
    1
    knime
  14. Go to item
    Workflow
    Read and parse multi-line JSONs
    Life Sciences JSON Parsing
    +1
    The workflow snippet demonstrates how to read and parse multi-line JSONs. They are first read in using the Line Reader node, and …
    knime > Workflow Snippets > Read and parse multi-line JSONs
    1
    knime
  15. Go to item
    Workflow
    Simple R View
    R plot Life Sciences Dose Response
    This workflow snippet illustrates how to create a simple R plot in the R View node. We use the R library drc to create a dose res…
    knime > Workflow Snippets > Simple R View
    1
    knime
  16. Go to item
    Workflow
    3D View of PDB structures
    PDB Cheminformatics 3D
    +1
    This workflow snippet demonstrates how to query PDB using the PDB nodes from the Vernalis extension and to visualized the results…
    knime > Workflow Snippets > 3D View of PDB structures
    1
    knime
  17. Go to item
    Workflow
    Tagging Genes in Disease Related Publications
    Life Sciences Ontologies RDF
    +4
    This example workflow shows how ontology terms can be used to tag biomedical literature. In the first step, the Triple File Reade…
    knime > Digital Healthcare > Tag Genes in Disease related Literature
    1
    knime
  18. Go to item
    Workflow
    Generating chemical fingerprints
    Cheminformatics Fingerprints Life Sciences
    This short workflow demonstrates how to generate chemical fingerpints using different methods. It uses nodes from the RDKit and t…
    knime > Workflow Snippets > Generating chemical fingerprints
    1
    knime
  19. Go to item
    Workflow
    Python View Example
    KDE Plot Seaborn Python
    +1
    This workflow shows how to create complex plots using your favorite python package. In this example, seaborn python package is us…
    knime > Workflow Snippets > Python View Example
    1
    knime
  20. Go to item
    Workflow
    Reactions with RDKit
    Life Sciences Cheminformatics Computational Chemistry
    +1
    This workflow demonstrates the one and two component reaction nodes from the RDKit community extension. This worklfow demonstrate…
    knime > Life Sciences > Cheminformatics > Reactions with RDKit > Reactions_with_RDKit_Hub_MarvinSketch
    1
    knime

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