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ruggleslab / jukebox

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Adding groups by uploading csv file #15

Closed jp589 closed 1 year ago

jp589 commented 1 year ago

Hello,

I'm interested in utilizing WHAM since I have metagenomic functional data, but I have several thousand samples. Since the group select tab only allows sample grouping by individually selecting samples from a list, I am unable to get past this step without spending hours selecting the correct samples.

If the intention is for others to use WHAM in their research, I would suggest adding functionality on the groups tab to allow a metadata file to be uploaded with a sample name column and a grouping column that would indicate the groups.

Thanks,

jp589

jcooperdevlin commented 1 year ago

Hi there,

The web browser was never designed to handle hundreds let alone thousands of metagenomic samples. This kind of processing power is not available on an Rshiny infrastructure. I encourage you to work with our R package to perform these calculations programmatically. The package can be found here https://github.com/zc1286/Wham

jp589 commented 1 year ago

I see. I will take a look at the R package.

Thanks,

jp589