Taxonomy Abundance Bar-chart.
I am looking to create taxonomic barplots comparing the average taxonomic assignment of different categories eg. Male v Female, age categories, etc.
I have run the command:
qiime taxa barplot --i-table table-dada2.qza
I then am able to visualise the barplot using:
qiime tools view taxa-bar-plots.dada2.qzv
I have 208 samples and I get a barplot containing 208 bars. I can group these bars by age or sex but am aiming to create a bar plot of the average of male and average of female (ie 2 bars).
I was looking to extract the file containing the relative abundance data so I could manipulate it and make some new plots in r.
I tried to convert the .qzv file into a .zip file and extract it but it didn’t seem to work. I followed the methodologies previously posted here but it doesn’t seem to work as I get a file of random numbers and characters out: How to convert .qzv file to .csv or .txt
QIIME 1 used to output these files as .biom or .txt files containing the OTU assignment and relative abundance for each sample. I am now using dada2 and ASVs in qiime2.
Maybe ASVs and OTUs are in the file differently?
Does anyone have any suggestion about whether this is the correct approach or whether I am missing something?