README update

noriakis · Feb 21, 2025 · 3534878 · 3534878
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 # q2-pathway
 
-QIIME 2 plugin for analyzing gene family abundances and biological pathway information obtained from 16S rRNA gene sequencing data.
+QIIME 2 plugin for analyzing and summarizing gene family abundances and biological pathway information obtained from 16S rRNA gene sequencing data.
 
 
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@@ -33,9 +33,9 @@ pip install pykegg
 
 This plugin is used to analyze the functional prediction results from 16S rRNA gene sequencing dataset and optionally the profile from shotgun metagenomes.
 
-`infer` module can perform an inferrence based on Piphillin or Tax4Fun2 algorithm. The Tax4Fun2 software and algorithm will be downloaded and installed at the first command launch of `infer_t4f2` (the original files can be found [here](https://zenodo.org/records/10035668) under GNU General Public License v3.0 or later).
+`infer` module can perform an inferrence based on Piphillin or Tax4Fun2 algorithm. The Tax4Fun2 software and algorithm will be downloaded and installed at the first command launch of `infer-t4f2` (the original files can be found [here](https://zenodo.org/records/10035668) under GNU General Public License v3.0 or later).
 
-For `Piphillin`, the databases can be found [here](https://w5po.myqnapcloud.com/share.cgi?ssid=998a2e41bb584a81b3b7233e8e7116e6) (RefSeq, [NCBI usage policies](https://www.ncbi.nlm.nih.gov/home/about/policies/)) and [here](https://w5po.myqnapcloud.com/share.cgi?ssid=9fd6f7d65e2a4fa595e38f3db0866773) (GTDB, [CC BY-SA 4.0](https://gtdb.ecogenomic.org/downloads)).
+For `Piphillin`, the databases can be found [here](https://w5po.myqnapcloud.com/share.cgi?ssid=31eb216b0449478984c4fc311c9bc4bb). The databases are built from RefSeq ([NCBI usage policies](https://www.ncbi.nlm.nih.gov/home/about/policies/)), Genome Taxonomy Database (GTDB, [CC BY-SA 4.0](https://gtdb.ecogenomic.org/downloads)), and the Unified Human Gastrointestinal Genome (UHGG, [Licensing](https://www.ebi.ac.uk/licencing/)).
 
 Suppose that `rep-seqs.qza` is an artifact containing the representative sequence (of ASV or OTU) and `table-dada2.qza` contains the count table of the sequences: