search

bioinformatics-centre / kaiju

Fast taxonomic classification of metagenomic sequencing reads using a protein reference database
http://kaiju.binf.ku.dk
GNU General Public License v3.0
258 stars 68 forks source link

kaiju-mergeOutputs for merging all kaiju outputs from different databases #279

Open EorgeKit opened 5 months ago

EorgeKit commented 5 months ago

Hello @pmenzel I had a soil metagenomic data that is very hard to classify due to lots of soil microorganism being uncharacterized. As a result I thought of using all the KAIJU databases so as to get some classification from all of them. Ideally I am thinking of using kaiju-mergeOutputs to merge the outputs from all the databases classification and proceeding with other downstream analyses. Is this feasible and would you recommend it? I saw the example in kaiju-mergeOutputs description only involves kaiju and kraken output. Please advise.

pmenzel commented 4 months ago

Hi,

yes you can do that. kaiju-mergeOutputs can also merge two kaiju output files.

EorgeKit commented 1 month ago

Hi,

yes you can do that. kaiju-mergeOutputs can also merge two kaiju output files.

Many thanks for the response