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Old 06-06-2015, 08:07 AM   #1
axa9070
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Default What does PHRED stand for?

I know it seems like a silly question to ask, but Google has no answer for me, nor do the papers published by Phil Green and Brent Ewing themselves. The wikipedia article on the matter is very helpful for understanding it, yet provides no explanation for this betwixting acronym.

Could it be PHRED is not an acronym?

Thank you,
Alex
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Old 06-06-2015, 09:52 AM   #2
Bukowski
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Given that Phred is not capitalised, it is unlikely to be an acronym.
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Old 06-06-2015, 02:00 PM   #3
Richard Finney
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http://www.acronymfinder.com/Phil%27...8PHRED%29.html


What does PHRED stand for?
PHRED stands for Phil's Read Editor (University of Washington Genome Center)

https://books.google.com/books?id=Q9...0phred&f=false

Last edited by Richard Finney; 06-06-2015 at 02:05 PM.
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Old 06-08-2015, 04:54 AM   #4
pmiguel
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Quote:
Originally Posted by Richard Finney View Post
http://www.acronymfinder.com/Phil%27...8PHRED%29.html


What does PHRED stand for?
PHRED stands for Phil's Read Editor (University of Washington Genome Center)

https://books.google.com/books?id=Q9...0phred&f=false
Kind of strange, given that Phred is a basecaller, not an editor...

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Old 06-08-2015, 06:41 AM   #5
Richard Finney
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I guess human review of problem spots ̶w̶a̶s̶ is important.

Last edited by Richard Finney; 06-08-2015 at 06:44 AM.
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Old 06-08-2015, 07:01 AM   #6
pmiguel
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Quote:
Originally Posted by Richard Finney View Post
I guess human review of problem spots ̶w̶a̶s̶ is important.
Point being that phred will not help you with that.

"phred" is in no sense an "editor". I'm sure it is just a dopey play on words: past tense of "read" is pronounced "red". Program written by Phil Green. "Ph" + "red" = "Phred". It's like "Fred", but spelled with a "Ph". Ha ha ha.

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Old 06-08-2015, 07:10 AM   #7
pmiguel
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Quote:
Originally Posted by Richard Finney View Post
Note that this book includes only one of the abbreviations provided by Phil Green in his documentation for "phrap" here:

http://www.phrap.org/phredphrap/phrap.html

Quote:
phrap ("phragment assembly program", or "phil's revised assembly program"; a homonym of "frappe" = French for "swat") -- a program for assembling shotgun DNA sequence data.
So the author may not have been looking to exhaustively research these minor issues...

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Old 02-14-2017, 07:33 AM   #8
LRoque
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Default Found a pdf....

https://www.illumina.com/documents/p...e_Q-Scores.pdf

This links to an article which explains Phred scoring.
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