UGENE Forum - How would one bulk export annotations to CSV

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How would one bulk export annotations to CSV (Read 3384 times)

Jul 26^th, 2016 at 3:20am

AnthonyJumelles Offline
YaBB Newbies

Posts: 2

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?

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Reply #1 - Jul 27^th, 2016 at 5:24pm

Olga Golosova Offline
YaBB Administrator

Posts: 338

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:

"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/).

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Reply #2 - Jul 27^th, 2016 at 8:25pm

AnthonyJumelles Offline
YaBB Newbies

Posts: 2

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

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