Get Multifasta or alignment for each CDSs

gtonkinhill / panaroo

An updated pipeline for pangenome investigation

MIT License

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Get Multifasta or alignment for each CDSs #302

Closed nbat64 closed 2 months ago

nbat64 commented 3 months ago

Hello,

Thank you for your software, it is really useful. I am comparing it with others tools (e.g. get_homologues.pl) and I will be interested to get from outputs multifasta or alignments per orthologous genes of core and cloud for following analyses (gene tree / selection test).

Do they exist as intermediate files before concatenation and alignment?

Thank you

gtonkinhill commented 3 months ago

Hi,

Sorry for the slow reply. Individual gene alignments should be available in the aligned_gene_sequences folder after running panaroo with the alignment parameter.