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https://forum.ugene.net/forum/YaBB.pl General Category >> Help and How-to >> How would one bulk export annotations to CSV https://forum.ugene.net/forum/YaBB.pl?num=1469478050 Message started by AnthonyJumelles on Jul 26^th, 2016 at 3:20am

Title: How would one bulk export annotations to CSV
Post by AnthonyJumelles on Jul 26^th, 2016 at 3:20am

I was hoping that there would be some way to export all of the annotations in a GenBank file but it seems that you'd have to individually select each one, pick a name, and then select CSV to export and as I have several thousand, I'd rather prefer not to waste the time.

Is there any way to export all annotations automatically as either one file or separate? If not, are there any programs that do so?

reference.jpg (161 KB | 376 )

Title: Re: How would one bulk export annotations to CSV
Post by Olga Golosova on Jul 27^th, 2016 at 5:24pm

Hello, Anthony!

In short, you may use the UGENE Workflow Designer to do it.

You should:
1) Create a workflow "Read Annotations" > "Write annotations".
2) Modify values of the "Write annotations" parameters as follows:
[list bull-redball]

"Existing file": "Append"

"Document format": "csv"

"Output file": any file name

This scenario will be described in detail (with screenshots) tomorrow in our Facebook group (https://www.facebook.com/groups/ugene/).

Title: Re: How would one bulk export annotations to CSV
Post by AnthonyJumelles on Jul 27^th, 2016 at 8:25pm

Appreciate it, would have never thought to look there! I'll be sure to join too.