How to apply the species models to another species

[Eden-yike]

Hi, i have two genomes from the same species, and i run braker3 to train the first genome species model, so how to apply the the first genome species model to the other genome? use parameters "--useexisting --species=first_genome "?

[KatharinaHoff]

It is currently not easily possible to do this at all because both GeneMarkS-T and GeneMark for eukaryotic genomes train. You can’t skip it without accuracy loss. Complete run recommended. Ke Yi ***@***.***> schrieb am Do. 28. Nov. 2024 um 04:45:

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Hi, i have two genomes from the same species, and i run braker3 to train the first genome species model, so how to apply the the first genome species model to the other genome? use parameters "--useexisting --species=first_genome "? — Reply to this email directly, view it on GitHub <#891>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AJMC6JGTBOK3WIPVTQ3KWA32C2GWXAVCNFSM6AAAAABSUFXLR2VHI2DSMVQWIX3LMV43ASLTON2WKOZSG4YDANRWGE2TEMQ> . You are receiving this because you are subscribed to this thread.Message ID: ***@***.***>

[Eden-yike]

thanks; so, use parameter "--species=first_genome" to annotate the seconda genome? is that ok ?

[KatharinaHoff]

You have to use a new string for species or delete the first round parameters from the augustus config path. Ke Yi ***@***.***> schrieb am Do. 28. Nov. 2024 um 05:50:

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thanks; so, use parameter "--species=first_genome" to annotate the seconda genome? is that ok ? — Reply to this email directly, view it on GitHub <#891 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AJMC6JATIY3CXU2OXTZ36TD2C2OIRAVCNFSM6AAAAABSUFXLR2VHI2DSMVQWIX3LMV43OSLTON2WKQ3PNVWWK3TUHMZDKMBVGI2TOMRRGI> . You are receiving this because you commented.Message ID: ***@***.***>