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+ [x] signatures (output by `sourmash sketch` or `sourmash compute`):
* `read_signature()`, show how to read multiple signatures using purrr,
* upset plots: `from_signatures_to_upset_df()…
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Dear all,
The pipeline crashed during report generation when analyzing 512 mouth and stool samples at once (leading to too many ASV detected in my dataset and a lot of data to analyze despite raref…
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We should consider adding a rule or two to automatically compute alpha diversity and maybe do some simple beta-diversity plots on all input samples, as that is often requested by people.
I'm think…
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Hi Shuangbin,
In my experimental design, I sequenced some samples and sub-samples. I would like to summarize and calculate the mean abundances for those samples and sub-samples so they represent on…
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to make sure there is a consistent user experience.
`plot_compare_mds` I think uses `theme_classic`, while `plot_signatures_rarefaction` doesn't have a theme.
I think not having a theme is prob…
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Hi,
I notice that at the end of the wiki rarefaction.single there is a non-functional link - here - for R visualization:
Visualization with R[🔗](https://mothur.org/wiki/rarefaction.single/#visu…
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to estimate how well we are doing with capturing all community members
do it with gather results and with k-mers and see how different these results are
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Hi,
I tried to load phyloseq object.
```R
library(ampvis2)
otutable
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HI again,
I ran my first 5 real samples using your nice tool in docker mode (the example run succeeded before this one)
The samples are 5 identical Zymo DNA community standard D6305 run with diffe…
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Hello,
I wanted to use the IMG helper script you provide for estimating the size of the pangenome to avoid the common errors assosiated with simply plotting a rarefaction curve. However, I am not …