The HCS Tools of the Max Planck Institute of Molecular Cell Biology and Genetics include readers for various microscopes, quality controls metrics, all common plate normalization methods, a very powerful plate heatmap viewer, library annotation tools, as well as barcode and plate layout utilities. Together with a rich set of R templates for visualization and modeling, these tools provide a powerful solution for mining screening data that is easy to use, but flexible enough to cope with various types of assays.
Please visit this site for installation instructions.
More details and documentation can be found in the Wiki on github, from where we also provide the source code of the nodes.
News
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2012-09-11 |
updates in the nightly build:
- reimplementation of normalization nodes (POC, Z-Score, NPI)
grouping column now can be <none>, reference column now can be <none> (ZScore, POC), processing options for large datasets, new columns will not be overwritten if they already exist, suffix can be changed, no 'NaN' as result anymore, NPI is a real percentage now, nodes create statistic tables as second output table
- bugfix for Range Splitter / Range Filter: missing values handling improved; Integer column support
- bugfix for Binning Analysis: The Binning Analysis node should be able to handle missing values in the grouping columns (reference label column)
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2012-06-25 |
updates in the nightly build:
- bugfix for Join Layout node (plate row and plate column were interchanged, e.g. well position C5 delivered layout information of E3)
- improved error messaging if a layout layer in Excel layout file does not follow the rules
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2012-06-05 |
updates in the nightly build:
- bugfix for Binning Analysis node (bin number can be changed now)
- bugfix for Dose Response node (concentration of zero will be used for calculation, node can work with single data points per concentration)
- new versions of nodes Join Layout and Load Layout (Excel sheet is now selectable and plate row and plate column columns can be set, support up to 1536 well format)
- bugfix: Outlier Removal node now work with integer and double columns
- General improvements: Icons and node descriptions have been reworked for several nodes
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2012-03-29 |
IMPORTANT: last update introduced a major bug. Please update (from tomorrow on)! |
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2012-03-22 |
updates in the nightly build:
- new node for Binning Analysis
- bugfix in Bscore normalization (normalized values were not correct)
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2012-02-24 |
Our workshop at the KNIME User Group Meeting 2012 showed that people are interested in the MPI extensions 'HCS-Tools' and 'Scripting Integrations'. The following links provide the tutorial material and example workflows:
http://idisk-srv1.mpi-cbg.de/knime/UGM_2012/
Feel free to send us questions, problems, feedback, ...
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2011-12-12 |
New implemention of 'Range Filter' and 'Range Splitter' with changed configuration settings and support for integer columns |
License
The HCS Tools are released under GPLv3 with additional permissions.