extract_kraken_reads.py accept bracken reports?

jenniferlu717 / KrakenTools

KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files

GNU General Public License v3.0

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extract_kraken_reads.py accept bracken reports? #92

Open Sabrin2020 opened 8 months ago

Sabrin2020 commented 8 months ago

Hi Team,

Could extract_kraken_reads.py accept bracken reports too?
As I have up to 40% of reads as unclassified by kraken, I do not not want to loose info in those unclassified reads in downstram analysis.

Could then using bracken outputs help here?

Best Regards, Sabrin

heccup commented 7 months ago

hello ,i have the same question,can we conmunicate forther

Jonchk1104 commented 4 weeks ago

Hello everyone. I have the same question about problem using the extract_kraken_reads.py command for Bracken reports. Will it be possible to create a new output file after running the Bracken, so we can use the new output file used for running extract_kraken_reads.py?