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Mykrobe-tools / mykrobe

Antibiotic resistance prediction in minutes
MIT License
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susceptibility #67

Closed Adelaam closed 4 years ago

Adelaam commented 4 years ago

Hello,

I am trying to get susceptibility for a M. tuberculosis genome, the output is giving me this: tb_sample_id": { "susceptibility": {}, "phylogenetics": { "phylo_group": { "Mycobacterium_tuberculosis_complex": { "percent_coverage": 96.699, "median_depth": 1

But not antibiotics results, do you why?

Thank you

iqbal-lab commented 4 years ago

it says the median depth is 1 - it won't make predictions with that little data.

Adelaam commented 4 years ago

I used a fasta file genome, is because of that? Or because the genome is too small.

Thank you.

From: Zamin Iqbal [mailto:notifications@github.com] Sent: 20 September 2019 11:57 To: Mykrobe-tools/mykrobe Cc: Adelaam; Author Subject: Re: [Mykrobe-tools/mykrobe] susceptibility (#67)

it says the median depth is 1 - it won't make predictions with that little data.

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iqbal-lab commented 4 years ago

ah yes, it doesn't support fasta file genomes - it is designed to take raw sequencing data. i'm closing this, please open a new one if you have an issue when using raw sequence data