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Hello Frederick,
Thanks for the updated tutorials on ANCOMBC and ANCOMBC2.
When looking at the updated tutorial for ANCOMBC ([version ](https://www.bioconductor.org/packages/release/bioc/vignette…
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Hi @kalebentley, sorry this has taken so long. The data wrangling turned out to be nontrivial; I kept encountering unanticipated wrinkles and did a lot of iterating between data cleaning and model fit…
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Hi Stefanie,
I have a problem with running the `diffnet()` command with permutation test option. The analysis starts, all MPI workers load and start, and then it seems to freeze forever without ex…
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https://pubmed.ncbi.nlm.nih.gov/27562258/ This is behind a paywall so here is the [PDF](https://github.com/waldronlab/BugSigDBcuration/files/10951197/chng2016.pdf).
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Hi !
I am a little confused concernaning the results obtained with shortstack.
To sum up, I work with two conditions and in each of them I have three biological replicates.
I firts performe…
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Hi,
When launching the DESeq function, I get the following warning:
> 25 rows did not converge in beta, labelled in mcols(object)$betaConv. Use larger maxit argument with nbinomWaldTest
Neverth…
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Please supply the following information:
Short title: The `benchdamic` package: benchmarking of differential abundance methods on microbiome data
Workshop URL: https://mcalgaro93.github.io/benchda…
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**Submitting author:** @wrightaprilm (April Wright)
**Repository:** https://github.com/wrightaprilm/treesiftr
**Version:** v1.0.0
**Editor:** @juanklopper
**Reviewer:** @ethanwhite, @rachelss
**Archiv…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/holab-hku/DCATS
Confirm the following by editing …
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I checked out #266 #268 but neither followed up sub-clustering with second round of runDR. I have a SingleCellExperiment object sce that contains the fullset of data. I can use runDR to generate TSNE,…