Dear,

Thank you for the package and sharing it.

Before investing some time, I would to know if the package really requires R>=3.6 or if it should work with older version of R. Because R>=3.6 is not in Debian stable yet, for example.

Thank you in advance for any comment.

Hello, I knew DEPECHE from a paper A comparison framework and guideline of clustering methods for mass cytometry data, and have just read your paper.
I think this method is excellent, but for transformation, I knew flow and mass cytometry data are with narrow range in low expression and wide range in high expression, so almost all other methods use logicle or asinh or so to transform data at first. But in your paper, it said DEPECHE only does log transformation when the kurtosis of data is high. So, my question is, why can DEPECHE be different from other methods in transformation? What if we do logicle or asinh transformation before DEPECHE?
Thank you!

Dear,

In src/Makevars, the test is done with &. Is it correct?

The correct logical and is && and not &.

Please see the Pull Request #4.

Best regards,
simon

ps:
Now it is packaged for GNU Guix. :-)
http://git.savannah.gnu.org/cgit/guix.git/tree/gnu/packages/bioconductor.scm#n4978

Hello, I tried depeche with a piece of mass cytometry data, but it didn't goes well.
The output:

As the dataset has less than 100 columns, peak centering is
                    applied.
Set 1 with 10 iterations completed in 47 seconds.
Set 2 with 10 iterations completed in 40 seconds.
The optimization was iterated 20 times.
Error in seq_len(ncol(clusterCentersMultSd)) :
  参数必需能被强制改变成非负整数
此外: Warning message:
In seq_len(ncol(clusterCentersMultSd)) : 只用'length.out'参数里的第一个元素

the first Error Chinese line means: Parameters must be able to be forced to be a non-negative integers
the last Warning Chinese line: Only use the first element of parameter 'length.out'

I guess there is something wrong in clusterCentersMultSd, but I don't know how to check.
I pre-transformed data by asinh. Should I use other transforming method?