Hello,
I'm having a play with GFinisher, and see it is generating two fasta files in it's outputs: results1.fasta result_alternative.fasta. The 'alternative' fasta files seems to contain a more contiguous assembly, but I can't see and information in the documentation regarding the differences between how these are produced.
Is there any information available on this?
Many thanks
James
If you would like to refer to this comment somewhere else in this project, copy and paste the following link:
In the last step of Finisher, we execute the strategy of closing the gaps (FGap) with less restrictive parameters.
This step may improve assembly but may cause genome compression by removing parts and possible genes flanked by repeated regions. In our experiments, we observed regions removed from the assemblies.
Thanks
If you would like to refer to this comment somewhere else in this project, copy and paste the following link:
Hello,
I'm having a play with GFinisher, and see it is generating two fasta files in it's outputs: results1.fasta result_alternative.fasta. The 'alternative' fasta files seems to contain a more contiguous assembly, but I can't see and information in the documentation regarding the differences between how these are produced.
Is there any information available on this?
Many thanks
James
Hi Mr James Abbott,
In the last step of Finisher, we execute the strategy of closing the gaps (FGap) with less restrictive parameters.
This step may improve assembly but may cause genome compression by removing parts and possible genes flanked by repeated regions. In our experiments, we observed regions removed from the assemblies.
Thanks