Stephan Reichl comments

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                                            Stephan Reichl

Snakemake 7 does not create SLURM dependencies when --immediate-submit flag is used

I do not know the exact last version but I know for sure that it works with 6.0.3. Hope this helps! Please let me know if you figure out how...

Snakemake 7 does not create SLURM dependencies when --immediate-submit flag is used

Hi @Hocnonsense, thanks for your analysis. Did you get it to work? Does your PR fix the issue? Thanks & Cheers, Stephan

Snakemake 7 does not create SLURM dependencies when --immediate-submit flag is used

Hi, I do not have any new ideas as of now, sorry. Cheers, Stephan

Snakemake 7 does not create SLURM dependencies when --immediate-submit flag is used

Hi @johanneskoester, I installed the latest Snakemake version (7.15.2.) and it worked! Thanks a lot, @Hocnonsense for the PR, you made my day! Cheers, Stephan

sklearn.exceptions.NotFittedError: This SGDClassifier instance is not fitted yet

Hi, I think you overwrite the variable y_train involuntarily (second line), there should probably be X_test. Hope that helps.

address adapter “confusion”

**ATAC-seq: Nextera adapter explanation by FD** Let's just focus on the color code since the orientation of the pieces is quite confusing. I assume you know the steps of adding...

address adapter “confusion”

[ATACseq_MultiQC_metric_diff.xlsx](https://github.com/epigen/atacseq_pipeline/files/13647569/ATACseq_MultiQC_metric_diff.xlsx)

make test data larger to include peaks and motifs

could be obsolete once the ATAC-seq RECIPE is provided.

Error plot_dimred_metadata

Thanks for reporting. Solved by clearer instructions in the documentation.

improve scatter plot speed

use geom_scattermore for smaller (and faster??) scatterplots https://rdrr.io/github/exaexa/scattermore/man/geom_scattermore.html