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Hello again,
I am interested in creating a differential role analysis as in Figure 6. Perhaps a silly question, but did you just run each condition separately through spacia, and then do custom sc…
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Collaborators have asked if we could implement a module for performing differential analysis.
After speaking with Dan T., we believe that we can do so in the existing application without bogging t…
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Hi, thanks for your fantastic work. I have paired samples, which are commonly analyzed with paired t-test. Now I am using the MSDAP, how to set the paired parameter in DeqMS, MSqRob, MS-EmpiRe? I am u…
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Hi !
I would like to explore interaction which the ligand is deregulated while the receptor is not, the opposite or such where they are deregulated in opposite directions.
I don't understand how…
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Hi Maria,
Thank you very much for developing this robust tool!
I am conducting the differential ERVs analysis. I have a question regarding if we should take gene expression into consideration.
…
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Hi!
I was wondering if there is option to use this for differential state analysis (differential expressiona analysis between stim vs ctrl) in a certain cell subset like B cells. So differential e…
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Hello,
I was using decoupleR for pathway analysis in single cell.
I tried a few lines:
```R
msigdb
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Hello,
I'm trying to run differential loop analysis using the script Imp_Scripts/DiffAnalysisHiChIP.r on a 2-conditions but only 1 replicate per condition data, without ChIP bam files.
However I …
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Thank you for creating the helpful tutorial. I have a question regarding the differential analysis section of the tutorial, in which a count matrix is generated. I realized from both my count table th…
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Dear Author,
I have used your example dataset, burkhardt21, for analysis, and I performed variable filtering with the following code:
fs.pp.determine_informative_variables(adata,
…