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Enhancement: Assigning multiple GPSC types to mixed (meta-genome) samples #287
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Hi Sreeram |
Dear Dr. John Lees,
Thank you for the information.
Thanks & Regards,
Dr. Sreeram Peela,
Ph.D. Medical Microbiology,
Research Associate (ICMR),
Department of Microbiology,
JIPMER - Puducherry.
…On Tue, Nov 14, 2023 at 3:07 PM John Lees ***@***.***> wrote:
Hi Sreeram
Unfortunately we don't currently have this capability built into poppunk
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johnlees
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enhancement
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wontfix
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Nov 30, 2023
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I have been utilizing PopPUNK for the assignment of GPSC clusters. Currently, I am working with nasopharyngeal metagenome data and aiming to identify multiple GPSC types present in a meta-genome, along with calculating their respective relative abundances. While there are established tools for identifying multiple serotypes from mixed samples (example: PneumoKITy), my specific interest lies in understanding whether PopPUNK incorporates features that facilitate the identification of multiple genotypes by mapping to an existing database, such as GPS_v6.
I wanted to know whether PopPUNK provides functionalities that align with my research needs.
Thank and Regards,
Sreeram Peela
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