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steineggerlab / Metabuli

Metabuli: specific and sensitive metagenomic classification via joint analysis of DNA and amino acid.
GNU General Public License v3.0
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Will compressed fastq.gz files be available as input in the future? #14

Closed StromTroopers closed 11 months ago

StromTroopers commented 1 year ago

Hello, thank you for this tool, it seems to be a very good alternative to kraken2 for example.

I have a question about the input you need in Metabuli. At the moment, users can add fasta or fastq files.

I was wondering if in future releases you would consider adding the ability to add compressed fastq.gz files directly, as this would really save space for the various projects that aim to analyse a large number of raw reads.

All the best.

jaebeom-kim commented 1 year ago

Thank you for reminding us of an important point. Sure, we will add functionality to support compressed files. Let me close this issue when we update the feature :) Thanks again!

jaebeom-kim commented 11 months ago

From Metabuli 1.0.2, classify and add-to-library support .gz files. Thank you :)

thanhleviet commented 6 months ago

From Metabuli 1.0.2, classify and add-to-library support .gz files. Thank you :)

@jaebeom-kim It's confusing when (not compressed) is still required in https://github.com/steineggerlab/Metabuli?tab=readme-ov-file#classification , I guess you might want to remove it from the README, thanks.

jaebeom-kim commented 6 months ago

@thanhleviet Thank you so much! I removed it.