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I am trying to plot NMDS plot from microbiome data in phyloseq and I used below command, It is working perfectly, but here I used raw otu count for NMDS plot and the rank-threshold transformation is …
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Hello Dr. Haak,
I am looking forward to following your tutorial and wondered if you could provide the unnormalized data that is input for normalisation.R in step 1_data_processing? It would be good f…
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### Report
Hello, I am a new user of dbcan. While running the following command:
`dbcan_utils CGC_abund -bt Bv_WXH_abund/Bv_WXH.depth.txt -i dbcan_result -a TPM
`
I encountered the following error…
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we're starting to develop more options for large-scale clustering of sketches over in https://github.com/sourmash-bio/sourmash/issues/2271 (GTDB and SRA scale, even!).
one feature that's been reque…
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### Please make sure these conditions are met
- [x] I have checked that this issue has not already been reported.
- [x] I have confirmed this bug exists on the latest version of anndata.
- [ ] (optio…
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The following table references chapters from [The Bioconductor 2018 Workshop Compilation](https://bioconductor.github.io/BiocWorkshops/).
You can see the workshop schedule that I developed [on the …
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Hi there, thanks for sharing this tool! It worked really well with my data after checking the PCoA plot. I have two questions regarding the downstream analysis though:
1. After using the tool and n…
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Hi, I am new to nanodisco and methylation profile analysis in general. I have come across the same issue multiple times while trying to perform methylation binning on a nanopore sequenced dataset comp…
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Very interesting and useful package. I wonder if you could provide some instructions how to use your package? I loaded data with `LoadData()` function but then I did not find how to proceed with the a…
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A. Alpha diversity
a) Metrics – richness, phylogenetic diversity, Shannon Index)
1) Coefficient of variation (CV = standard deviation/mean) – useful to compare the variation of two populations indepen…