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fastq-quality

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Work with FASTQ quality scores using Biopython - access Phred scores, filter and trim by quality, compute per-position profiles, and convert between Sanger/Phred+33, Solexa, and Illumina/Phred+64 encodings. Use when analyzing read quality, filtering or trimming low-quality bases, generating quality reports, or deciding which FASTQ quality encoding a file uses before parsing.

When to use

• analyzing read quality
• filtering or trimming low-quality bases
• generating quality reports
• deciding which FASTQ quality encoding a file uses before parsing
• accessing Phred scores
• computing per-position profiles
• converting between quality encodings

When not to use

• using pysam.FastxFile on Phred+64 or Solexa data
• auto-detecting encoding from content alone

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