phredsort - 1.3.0

phredsort v1.3.0

Updates: - [new] two new quality metrics added (--metric): - lqcount - number of bases below quality threshold ("unqualified" bases) - lqpercent - percentage of bases below quality threshold - in addition, the --minphred flag is added to specify the quality threshold for these metrics - [new] quality-based filtering of reads (flags --minqual and --maxqual) - [new] option to add multiple quality scores to sequence headers (--header flag) - [upd] code refactoring and cleanup - [fix] bug with writing compressed data to output file

- Go
Published by vmikk about 1 year ago

phredsort - 0.5.0

phredsort v0.5.0 - initial release

phredsort is a high-performance tool for sorting FASTQ files based on sequence quality metrics.

Features

• Multiple quality metrics:

  • avgphred: Average Phred quality score
  • maxee: Maximum expected error (absolute number)
  • meep: Maximum expected error percentage (per sequence length)

• Flexible input/output:

  • Supports both file-based and stdin/stdout streaming
  • Handles compressed (gzip, bzip2, xz, zstd) and uncompressed FASTQ files
  • (Optionally) utilizes memory compression for stdin-based processing mode (to reduce memory footprint)

- Go
Published by vmikk about 1 year ago