- Last 7 days
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data.securebio.org data.securebio.org
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160 samples
If we won’t know whether 1 sample = 1 donation I would call that out explicitly.
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SARS
Looks like we only got SARS reads in two samples. This is a good candidate for validating with BLAST if there's time.
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species
Also noteworthy that we saw a lot of anelloviridae in the Cebria Mendoza RNA MGS paper.
Maybe we have both RNA and DNA stages of anelloviridae get picked up, or maybe the RNA > cDNA sample prep just also got a bunch of anelloviridae DNA in it.
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e preparation/library preparation is not taken
I would highlight/link the Cebria Mendoza paper here.
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Popular/Well-known Name
This is a great addition. I think it would actually be better to use the popular names in the above RA plot as well.
We may also have some data source internally at SB that has a mapping from NCBI taxonomic virus name to common name.
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exclude Anelloviridae
Why exclude Anelloviridae?
I think it would make sense to have a version of this plot with human reads removed as we discussed in the context of Cebria Mendoza paper.
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2.2 Quality control metrics
Can the two QC sections be combined or are they stage specific?
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3.2 Total viral content
I would make this a histogram. You can make two histograms - one for classified reads and one for all reads.
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4.1 Overall relative abundance
I still think making a histogram is the way to go for this plot
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p_reads_max
What is p_reads_max?
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