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wodanaz / Assembling_viruses

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Include barplot in pipeline #56

Open johnbradley opened 3 years ago

johnbradley commented 3 years ago

R code to generate the plot is under resources/plotting_barplot.R. This script uses data from multiple runs so that will require some research.

johnbradley commented 3 years ago

@wodanaz The R code uses an input *_cleaned.txt file: https://github.com/wodanaz/Assembling_viruses/blob/66c137f4130ee5c5224ab6ace66f8da4eb39bced/resources/plotting_barplot.R#L10 How was this input file built?

wodanaz commented 3 years ago

I exported after manually making a consolidated master table while making data reports. I keep a high quality set of samples during that I hand curate because we get negative controls that I remove after I receive the list of negative control samples. Also, I remove the sequences that cannot get classified because of quality issues.

I will send the table in duke DM