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Hi,
I'm running make p_compressed, but I think it may be stuck? I modified the make file to use 12 threads instead of one (which was taking forever), but it's been stuck here for nearly two hours.…
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I have to run `singlem pipe` separately because I have too many files for a combined run, but then I have to combine them sequentially because the singlem commands cannot accept that many file argumen…
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I am interesting in post-DADA2 clustering of ASVs for more general animal biodiversity questions at the species or genus-level using, in this case, the CO1 marker. While the ASVs are very interesting …
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Hi!
Thanks for the excellent tool phanta.
I have run phanta (following raw reads quality control and host contamination removal) for my samples (human fecal samples, Illuminia 150bp paired-end r…
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Hi,
I've looked through this issue (https://github.com/joey711/phyloseq/issues/518) and tried several things myself and can't figure out how to keep the sample order in the order that I need.
I …
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Hey @teunbrand,
thank you for your great package!
I was wondering if there is an option to use the remove_labels="x" option together with independent="x" from facet_grid2, if the labels are ide…
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I have output from multiple sequencing runs that I want to analyze together, and some data from the same sequencing runs that I want to analyze separately. So my questions are:
1) should I combine da…
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I used name_na_taxa function to assign all the taxa that are NA to their higher taxonomic rank. However, this function only worked at Species rank. All the NA in species were assigned as "Unknow ", wh…
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I met a problem when using it, the code was under:
**> library(microeco)
> library(ape)
> setwd("/Users/Yeyonglian/Desktop/扩增子/R")
> tax asv group tree library(magrittr)
> library(ggplot2)
>…
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Hello,
Thank you for this great pipeline!
Is there a way to merge all groot reports into a single abundance table in a similar way to ASVs/OTUs tables?
Thanks a lot in advance!