multifasta for all proteins

[inbal-tz]

is there a way to get the nucleotide sequences of each cluster (either one representative or the nucleotide sequence of this cluster in each isolate)?
I would like to have a fasta file with every gene cluster, and a matching DNA sequence.
thanks!

[andrewjpage]

Just add the -z option and you will have a subdirectory with a single FASTA file for each cluster containing nucleotides.

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On Wed, 10 Oct 2018, 08:18 inbal-tz, ***@***.***> wrote: is there a way to get the nucleotide sequences of each cluster (either one representative or the nucleotide sequence of this cluster in each isolate)? I would like to have a fasta file with every gene cluster, and a matching DNA sequence. thanks! — You are receiving this because you are subscribed to this thread. Reply to this email directly, view it on GitHub <#424>, or mute the thread <https://github.com/notifications/unsubscribe-auth/AABeVzVxsmbWLVobIcPkTAyyO2KQtQHAks5ujZ9UgaJpZM4XUtvD> .

[andrewjpage]

Sorry you also have to do -e

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On Wed, 10 Oct 2018, 08:22 Andrew Page, ***@***.***> wrote: Just add the -z option and you will have a subdirectory with a single FASTA file for each cluster containing nucleotides. On Wed, 10 Oct 2018, 08:18 inbal-tz, ***@***.***> wrote: > is there a way to get the nucleotide sequences of each cluster (either > one representative or the nucleotide sequence of this cluster in each > isolate)? > I would like to have a fasta file with every gene cluster, and a matching > DNA sequence. > thanks! > > — > You are receiving this because you are subscribed to this thread. > Reply to this email directly, view it on GitHub > <#424>, or mute the > thread > <https://github.com/notifications/unsubscribe-auth/AABeVzVxsmbWLVobIcPkTAyyO2KQtQHAks5ujZ9UgaJpZM4XUtvD> > . >

[inbal-tz]

perfect! thanks!
if I understand correctly, -e will only do this for the core genes, is that not correct?