Sequence ID Extraction

Often, we need to know what are the taxa we in our dataset. The simplest command would be:

segul sequence id -i [input-path]

segul will generate the ID in a text file containing a list of the ID in alphabetical order. By default the output directory is SEGUL-ID. The file will be saved as id.txt in the output directory. For example, if the input directory contains three sequence files, the output file will look like this:

sequence_1
sequence_2
sequence_3

To change the output directory, use the -o or --output option:

segul sequence id -i alignments/ -o my_alignment_id

To change the output file name, use the --prefix option:

segul sequence id -i alignments/ --prefix my_alignment_id

info

Before version 0.19.0, segul output sequence ID in the current working directory. The output option will only change the file name.