Samuel Granjeaud comments

Results 83 comments of


                                            Samuel Granjeaud

Possible bugfix for LMM fit outputting NAs for all comparisons

Hi guys, Sorry I deleted my repo in order to fork from here, and then to reinsert and validate my patch before sending a PR. It should be ready on...

Error in the step of training the model

Based on the documentation of the current FlowSOM package, there is a channels argument. https://bioconductor.org/packages/release/bioc/manuals/FlowSOM/man/FlowSOM.pdf page 12 @ctjimmyhsu The version you are using is probably not the latest one. @m-nikolaidis...

CytoNorm not working in R 4.2

Hi, What are the versions? ``` BiocManager::valid() packageVersion("FlowSOM") ```

Arcsinh transform with a cofactor of 150 for Cytek Aurora data

Hi, My answer is not authoritative, Sofie or others will correct me. `transformList()` is a flowCore function, so your question should be addressed to flowCore package. An even better place...

CytoNorm for anaconda install

Hi, Just being curious, why github is not considered as an easy way of installation? Best.

CytoNorm for anaconda install

Thanks for your feedback. I was not aware about all those things. Best.

FlowSOM fail on new normalized FCS files

Hi, Failure: try to load the files with another software, e.g. FlowJo or Omiq, in order to repeat the error? check compliance with http://bioinformin.cesnet.cz/flowIO/. Size: if the files before normalization...

FlowSOM fail on new normalized FCS files

I didn't encounter such a problem. Sofie will probably answer you soon.

Could you build a specific function for plotting of outliers?

Hi Sofie, Thanks for your feedback. No urge. If you are modifying the code, I would propose you to make it more compact and more formatted to the left side...

Filtering stats results breaks add_xy_position

Hi, I got the same issue that is due to the fact that filtering occurs after positions have been computed. My current workaround is to explicitly set the comparisons. ```...