export2graphlan.py --skip_rows 1 -i merged_abundance_table_reformatted.txt --tree merged_abundance.tree.txt --annotation merged_abundance.annot.txt --most_abundant 100 --abundance_threshold 1 --least_biomarkers 10 --annotations 5,6 --external_annotations 7 --min_clade_size 1
There are duplicate taxa entries, please check the input file!
I did the files merged_abundance_table_reformatted.txt as the tutorial described.
tail -n +2 merged_abundance_table.txt | cut -f1,3- > merged_abundance_table_reformatted.txt
cat merged_abundance_table_reformatted.txt |cut -f1|sort|uniq -c
All my taxas are unique.
Thanks