what is the format of annotation file?

[zhanghao-njmu]

Dir sir:
I cannot run the script because I don't know the format of the annotation file required. As far as i know, this not a standard bed format. Which format do i need to send to the parameter?
Best wish!

[kadenerlab]

You can see the format of the annotation file in the example " annotation_example_dm3.txt <https://github.com/kadenerlab/cORF_pipeline/blob/master/annotation_example_dm3.txt>" in the github. Best Reut

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On Sat, Jan 6, 2018 at 6:36 PM, zh542370159 ***@***.***> wrote: Dir sir: I cannot run the script because I don't know the format of the annotation file required. As far as i know, this not a standard bed format. Which format do i need to send to the parameter? Best wish! — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#1>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AM5HSy_7LKSevcJWrSZgZDWVho1MPy8dks5tH6EOgaJpZM4RVXKW> .

[blueheavan]

Dir sir:
I cannot run the script because I don't know the format of the annotation file required. As far as i know, this not a standard bed format. Which format do i need to send to the parameter?
Best wish!

Dear Sir,
I have the same problem. May you help me, please.

[kadenerlab]

You have test files in the pipeline folder. Please use them to see the exact formst. Reut בתאריך יום ב׳, 10 בפבר׳ 2020, 17:23, מאת blueheavan ‏< [email protected]>:

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Dir sir: I cannot run the script because I don't know the format of the annotation file required. As far as i know, this not a standard bed format. Which format do i need to send to the parameter? Best wish! Dear Sir, I have the same problem. May you help me, please. — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#1?email_source=notifications&email_token=ADHEOSY62PYMIFOJUWFMQQDRCFWPHA5CNFSM4EKVOKLKYY3PNVWWK3TUL52HS4DFVREXG43VMVBW63LNMVXHJKTDN5WW2ZLOORPWSZGOELI46BY#issuecomment-584175367>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/ADHEOS53ZEWTOVUIMTSZRN3RCFWPHANCNFSM4EKVOKLA> .

[zhuyiqin]

the test annotation file has no descriptions for each column, so I don't know how to make my own annotation file.

[sumu-ai]

Dear Sir,
It's not clear what each column represents in annotation file in the example,especially the last few columns
Best wish!

[DooYal]

the test annotation file has no descriptions for each column, so I don't know how to make my own annotation file.

The format of annotation file is called genepred, which can be transfered by https://hgdownload.soe.ucsc.edu/admin/exe/linux.x86_64/gtfToGenePred