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Probably a dumb question but is there an easy(?) way to create a multi-fasta alignment using query_pan_genome if you happen to not have a gene name for the sequence you are interested in, example below:
gnl|Prokka|UoS_HiD_208885_contig000017 Prodigal:2.60 CDS 1695 2798 . + 0 ID=UoS_HiD_208885_00745;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK10159;locus_tag=UoS_HiD_208885_00745;product=outer membrane phosphoporin protein E;protein_id=gnl|Prokka|UoS_HiD_208885_00745
Thanks for your help,
David
The text was updated successfully, but these errors were encountered:
Hi David,
You need to find out the name of the cluster. For example if you search the
gene presence and absense spreadsheet for UoS_HiD_208885_00745 and take the
first cell. It will either be called a gene name or have group_XXX.
Regards,
Andrew
On 2 March 2017 at 14:57, davidwcleary ***@***.***> wrote:
Hello,
Probably a dumb question but is there an easy(?) way to create a
multi-fasta alignment using query_pan_genome if you happen to not have a
gene name for the sequence you are interested in, example below:
gnl|Prokka|UoS_HiD_208885_contig000017 Prodigal:2.60 CDS 1695 2798 . + 0
ID=UoS_HiD_208885_00745;inference=ab initio prediction:Prodigal:2.60,protein
motif:CLUSTERS:PRK10159;locus_tag=UoS_HiD_208885_00745;product=outer
membrane phosphoporin protein E;protein_id=gnl|Prokka|UoS_HiD_208885_00745
Thanks for your help,
David
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Hello,
Probably a dumb question but is there an easy(?) way to create a multi-fasta alignment using query_pan_genome if you happen to not have a gene name for the sequence you are interested in, example below:
gnl|Prokka|UoS_HiD_208885_contig000017 Prodigal:2.60 CDS 1695 2798 . + 0 ID=UoS_HiD_208885_00745;inference=ab initio prediction:Prodigal:2.60,protein motif:CLUSTERS:PRK10159;locus_tag=UoS_HiD_208885_00745;product=outer membrane phosphoporin protein E;protein_id=gnl|Prokka|UoS_HiD_208885_00745
Thanks for your help,
David
The text was updated successfully, but these errors were encountered: