Phylip to Qual Sequence Converter

Input format: phylip An alignment format. Truncates names at 10 characters.

Output format: qual Qual files are a bit like FASTA files but instead of the sequence, record space separated integer sequencing values as PHRED quality scores. A matched pair of FASTA and QUAL files are often used as an alternative to a single FASTQ file.

You can also convert between these formats by using command line tools.

On Windows install WSL, on Mac or Linux start terminal

Install BioPython

Run following script:

from Bio import SeqIO

records = SeqIO.parse("THIS_IS_YOUR_INPUT_FILE.phylip", "phylip")
count = SeqIO.write(records, "THIS_IS_YOUR_OUTPUT_FILE.qual", "qual")
print("Converted %i records" % count)

Or you can use this site as online phylip to qual converter by selecting your formats & file.