Partek Flow Documentation

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Numbered figure captions
SubtitleTextUse the mean or median of all samples as the baseline to normalize the data
AnchorNamenorm-to-all

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Advanced configure options
AnchorNamesc-adv

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Features for parameter estimation: Specify number of features to use in estimation of parameters, 0 means to use all input features

Center results: when choose Yes, center all the transformed features to have mean as 0

Clip results: If not clip the result, outliers might have big effect and the transformed data can be very large for some features, usually the ones with few non-zero counts. When choose Yes, the range to clip the transformed data is between -sqrt(n/30) and sqrt(n/30), n is the number of cells

Random seed: use the same random seed to reproduce the results. 

Data has been log transformed with base: specify the input data is logged or not

The data in the output node is a matrix of standardized residual on all the features in all the observations, the range of the values is roughly between -4 and 4. 

References

  1. Christoph Hafemeister, Rahul Satija Normalization and variance stabilization of single-cell RNA-seq data using regularized negative binomial regression.  https://doi.org/10.1101/576827




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