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Thank you for creating this wonderful tool.
I have a doubt and I don't know if it's silly or I'm wrong.
When running orthofinder with default values, for example:
orthofinder -t 32 -f PROTEOMES
a folder called “Orthogroups_Sequences” is generated where for each orthogroup there is a fasta file with the sequences of that orthogroup. However, the IDs of the proteins do NOT carry the species name.
The manual implies that if you do not want the species names you should use the -X option, but it seems that this option is enabled by default, since the species names do not appear in the output files. Am I wrong?
"-X Don't add species names to sequence IDs"
how could the species name be added to the protein IDs in the fasta files and in the tree files?
thank you very much
The text was updated successfully, but these errors were encountered:
Thank you for creating this wonderful tool.
I have a doubt and I don't know if it's silly or I'm wrong.
When running orthofinder with default values, for example:
orthofinder -t 32 -f PROTEOMES
a folder called “Orthogroups_Sequences” is generated where for each orthogroup there is a fasta file with the sequences of that orthogroup. However, the IDs of the proteins do NOT carry the species name.
The manual implies that if you do not want the species names you should use the -X option, but it seems that this option is enabled by default, since the species names do not appear in the output files. Am I wrong?
"-X Don't add species names to sequence IDs"
how could the species name be added to the protein IDs in the fasta files and in the tree files?
thank you very much
The text was updated successfully, but these errors were encountered: