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Merging phyloseqs drops taxa lacking refseq -- if one object has refseq, only those taxa will be included

Status: Open.

#1790 In joey711/phyloseq;

· nickp60 opened on Sep 12, 2025

filtering issue

Status: Open.

#1789 In joey711/phyloseq;

· nibaskumar93n-debug opened on Aug 29, 2025

why is it that when searching for a taxa as a factor i get something different than when it is a character?

Status: Open.

#1788 In joey711/phyloseq;

· gabrielet opened on Aug 15, 2025

Use of rarefy_even_depth() for repeated subsampling (empirical rarefaction)

Status: Open.

#1787 In joey711/phyloseq;

· SalmaSarker opened on Aug 5, 2025

Error message when creating a phyloseq object

Status: Open.

#1786 In joey711/phyloseq;

· hammerklaviersonate opened on Jul 19, 2025

Extract and quantify the relative abundance of AOA, AOB and comammox candidates

Status: Open.

#1785 In joey711/phyloseq;

· ksweta596 opened on Jun 1, 2025

sample_data function adding letters to row name IDs

Status: Open.

#1784 In joey711/phyloseq;

· VBDecol opened on May 24, 2025

Issue with phyloseq::distance

Status: Open.

#1783 In joey711/phyloseq;

· mjbug opened on Apr 25, 2025

Tax_glom over aggregating beyond specified taxonomy

Status: Open.

#1782 In joey711/phyloseq;

· maxnoblemm opened on Apr 1, 2025

Merging datasets

Status: Open.

#1781 In joey711/phyloseq;

· ra-klein opened on Mar 25, 2025

subset otu only for certain sample_id

Status: Open.

#1780 In joey711/phyloseq;

· SAM81221 opened on Mar 16, 2025

Sample loss in otu_table

Status: Open.

#1778 In joey711/phyloseq;

· benhardestevao opened on Jan 29, 2025