-
https://github.com/imminfo/tcr/blob/96c36080237f3c3087147dbcd37223414fcc506e/R/plots.R#L603
Think there's a typo, _group_ rather than _Group_ as an aesthetic. But changing that means that each gro…
-
CatchAll is a pain to support. It's also the only command where we require users to download separate tools to use. I would like to remove it from mothur.
We would then replace it with a new command …
-
Hi
I am trying to get rarefaction curves for my data using the script by jakevc (https://github.com/mahendra-mariadassou/phyloseq-extended/blob/master/R/richness.R). However, after running the ggr…
Tre10 updated
5 years ago
-
This issue documents to the finite volume fluid solver to add the capability to model multiple fluids in a single simulation.
This involves recording the density of each individual fluid component,…
-
Hi Schloss,
Thanks for your nice working of mothur.
It is said that the speed of rarefaction.single has been increased.
However, when I calculate the rarefaction of the diversity index, it se…
-
Hi!
Great implementation, its very fast. But I only need to rarefy and not calculate diversity and richness measures. Is it possible to ONLY rarefy and only return the rarefied count matrix in R?
…
-
Hello jeoy711,
I am new to this package. However whatever I have tried so far looks great. Quality of the plots are very good.
I read from phyloseq literature that alpha diversity and rarefaction …
RB786 updated
5 years ago
-
I was running 1D shock tubes with refinement, and I noticed problems with one test where a magnetized rarefaction passed from fine to coarse cells. I first noticed this in SR, but the problem is entir…
-
Hello Liz,
I corrected transcripts with RNA-Seq data, and the did the mapping by GMAP, collapsed by TOFU.
When I used Cupcake ToFU to filter away 5' degraded isoforms, it end with *.all.collapsed…
-
change params.metadata as not strictly required, because:
- params.metadata is "only" required for processes:
barplot
alpha_rarefaction
diversity_core
alpha_diversity
metadata_category_all
me…