Knime and CDD Vault

#1

Does anyone use Knime as a workflow for Plate-based and Well-based HTS Analytics by exporting raw data from CDD Vault (Collaborative Drug Discovery), processing the calculations in Knime, and then exporting the finished statistical data back into CDD? If so I’d be GREATLY interested in your process.

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#2

Hi hungerfordwm,
You could find an example workflow on KNIME public EXAMPLES server for processing plate-based HTS data. You could find it under /EXAMPLES/50_Applications/_23_PMR_Analysis
Hope it helps to get you started
Best,
Daria

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#3

Daria,

Thank you for pointing me into the correct direction. I had no idea that such example workpaths existed in KNIME. However, when I tried to open this specific workflow, I was told that I was missing nodes and then prompted to search for the missing nodes. I did so but then still received the following error:

“No extensions for the following nodes were found: Dendrogram with Heatmap, Interger Input, Double Input.”

Do you know of an application with these feature nodes that I may be able to find elsewhere?

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#4

Hi Hungerfordwm,

The Dendrogram with Heatmap node are provided by an external developer
Here is the link to the source code and installation details https://github.com/aborg0/hits

Integer Input and Double Input could be installed using KNIME Analytics Platform 3.5 Update Site - http://update.knime.com/analytics-platform/3.5 They are part of Quickforms extensions

Hope it helps.
Daria

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#5

Daria,

THANK YOU for answering my questions. I long since forgot that I had even asked this question until this week when I realized that I was still having the same problem. Your first link to the source code and installation details pulled up multiple files. I’m not sure which ones you were specifically mentioning with regard to the dendrogram and heatmap nodes. The second url link you provided using the KNIME Analaytics Platform 3.5 update site is no longer active. However, I may not even have this issue anymore since I am currently running version 3.6.2, yes?

Will

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#6

Hi Will,
I pointed you to the resources to install The Dendreogram with Heatmap node. This node was developed by TCD. Please contact the developers (probably through the github page) for more information on this node.

The second link is the general update site. It always corresponds to the current release version. E.g. if you are running KNIME Analytics Platform 3.5.x then the update site will be http://update.knime.com/analytics-platform/3.5. And if you are running KNIME Analytics Platform 3.6.x then the update site will be http://update.knime.com/analytics-platform/3.6. And so on. The links are updated once you update the version of Analytics platform.

I hope it brings some more clarity.

Best,
Daria

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#7

Daria,

Do you know what the full name is for the developers TCD is?

Will

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