Discussion:
[apollo] Export evidence data for all sequences
Loraine Guéguen
2016-12-09 10:34:39 UTC
Permalink
Dear Apollo list,

Is there a way to export one evidence track in GFF format for ALL
sequences of the genome and not only the current scaffold/chromosome ?
(maybe more a JBrowse question)

Thanks

Loraine Guéguen
--
Loraine Guéguen

Plateforme ABiMS (Analyses and Bioinformatics for Marine Sciences)
Service Informatique et Bioinformatique
Station Biologique de Roscoff
FR 2424 CNRS UPMC
Place Georges Teissier
CS 90074
29688 Roscoff cedex
tel: ++33 (0)2 98 29 56 46 (interne : 415)
http://abims.sb-roscoff.fr/
http://www.sb-roscoff.fr/
Nathan Dunn
2016-12-09 19:10:45 UTC
Permalink
Loraine,

Off-hand, I don’t know how to do this for evidence.

Is there a reason you can’t use the original GFF3 from the evidence you used to create the tracks?

Nathan
Post by Loraine Guéguen
Dear Apollo list,
Is there a way to export one evidence track in GFF format for ALL sequences of the genome and not only the current scaffold/chromosome ?
(maybe more a JBrowse question)
Thanks
Loraine Guéguen
--
Loraine Guéguen
Plateforme ABiMS (Analyses and Bioinformatics for Marine Sciences)
Service Informatique et Bioinformatique
Station Biologique de Roscoff
FR 2424 CNRS UPMC
Place Georges Teissier
CS 90074
29688 Roscoff cedex
tel: ++33 (0)2 98 29 56 46 (interne : 415)
http://abims.sb-roscoff.fr/
http://www.sb-roscoff.fr/
This list is for the Apollo Annotation Editing Tool. Info at http://genomearchitect.org/
Loraine Guéguen
2016-12-21 16:12:10 UTC
Permalink
ok, thanks.
Post by Nathan Dunn
Loraine,
Off-hand, I don’t know how to do this for evidence.
Is there a reason you can’t use the original GFF3 from the evidence you used to create the tracks?
Nathan
Post by Loraine Guéguen
Dear Apollo list,
Is there a way to export one evidence track in GFF format for ALL sequences of the genome and not only the current scaffold/chromosome ?
(maybe more a JBrowse question)
Thanks
Loraine Guéguen
--
Loraine Guéguen
Plateforme ABiMS (Analyses and Bioinformatics for Marine Sciences)
Service Informatique et Bioinformatique
Station Biologique de Roscoff
FR 2424 CNRS UPMC
Place Georges Teissier
CS 90074
29688 Roscoff cedex
tel: ++33 (0)2 98 29 56 46 (interne : 415)
http://abims.sb-roscoff.fr/
http://www.sb-roscoff.fr/
This list is for the Apollo Annotation Editing Tool. Info at http://genomearchitect.org/
This list is for the Apollo Annotation Editing Tool. Info at http://genomearchitect.org/
--
Loraine Guéguen

Plateforme ABiMS (Analyses and Bioinformatics for Marine Sciences)
Service Informatique et Bioinformatique
Station Biologique de Roscoff
FR 2424 CNRS UPMC
Place Georges Teissier
CS 90074
29688 Roscoff cedex
tel: ++33 (0)2 98 29 56 46 (interne : 415)
http://abims.sb-roscoff.fr/
http://www.sb-roscoff.fr/
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