Krona

Install

# https://github.com/marbl/Krona/wiki
conda create -n krona -c bioconda krona
source activate
conda activate krona

Usage

Input Example (sep='\t')

21  Lvl1_A  Lvl2_A  Lvl3_a
296 Lvl1_A  Lvl2_B  Lvl3_b
213 Lvl1_A  Lvl2_C  Lvl3_c
213 Lvl1_A  Lvl2_C  Lvl3_d
213 Lvl1_A  Lvl2_C  Lvl3_e

Run

ktImportText KronaInput.xls  -n A1  -o A1.html 

Packed for otu_taxa_table

otu_taxa_Krona.py generates KronaRun.sh and KronaInput files

python3 otu_taxa_Krona.py  otu_taxa_table.xls   dpcofgs
source activate
conda activate krona
sh KronaRun.sh
conda deactivate

Example of otu_taxa_table

OTU_ID  S1  S2  taxonomy
OTU_1   21  12  d__Bacteria; p__Proteobacteria; c__Deltaproteobacteria; o__Desulfuromonadales; f__Sva1033; g__Sva1033; s__unclassified_Sva1033
OTU_2   26  23  d__Bacteria; p__Proteobacteria; c__Deltaproteobacteria; o__Myxococcales; f__Sandaracinaceae; g__uncultured; s__unclassified_uncultured

参考