I am preparing a manuscript on the metagenomic analysis using QIIME2, and I'm facing issues with figure quality.
My problem:
I have QIIME2 visualization files (.qzv) containing alpha diversity plots (Shannon index, Simpson index), rarefaction curves, and taxonomic barplots. When I view these in my browser (index.html), I can only find .jsonp files in the data folder. I took screenshots of the plots and inserted them into my Word document, but the resolution is very poor (unsuitable for publication).
•
written
by
Pluton17 •
1 answer
You can import your .gzv format files into https://view.qiime2.org/ . Then export high quality plots as SVG/PNG from the viewer.
They have help page available here: https://view.qiime2.org/about/#/
Log in to answer this question.
-
Kraken2/bracken with 16S sequencing downstream analysis
written by Isidro •
-
Uncertainty on Which Data to Use for Alpha Diversity Analysis (Shannon)
written by Joe Kherery
-
Do I have enough reads for virome analyis?
written by Mageiros •
-
Error while trying to plot PCoA into stat_ellipse
written by Lívia •
-
Tool: Still Not Use QIIME2 for Amplicon Analysis? You’re OUT!
written by Novogene •
-
Should I calculate beta diversity with or without rarefaction?
written by dpc
-
News: Course 16S Metabarcoding in Berlin (March 2020)
written by Physalia-courses
-
News: Eukaryotic metabarcoding Workshop
written by Physalia-courses
-
Inconsistent among simpson index curve and shannon index curve in alpha diversity analysis using QI…
written by Ginsea Chen
-
alpha-diversity beta-diversity rarefaction curves
written by agata88
