Variable FastqUtilsConst

Type Declaration

• ReadonlydetectFormat: (data: string) => boolean

  Detect if string contains FASTQ format data

• ReadonlycountSequences: (data: string) => number

  Count sequences in FASTQ data without parsing

• ReadonlyextractIds: (data: string) => string[]

  Extract sequence IDs from FASTQ data

• ReadonlyparseHeader: (
      headerLine: string,
      lineNumber: number,
      options: {
          skipValidation?: boolean;
          onWarning?: (msg: string, line?: number) => void;
      },
  ) => { id: string; description?: string }

  Parse FASTQ header line

• ReadonlyvalidateQuality: (
      qualityLine: string,
      sequence: string,
      sequenceId: string,
      lineNumber: number,
  ) => string

  Validate quality string length

• ReadonlyvalidateSequence: (
      sequenceLine: string,
      lineNumber: number,
      options: { skipValidation?: boolean },
  ) => string

  Validate FASTQ sequence

• ReadonlyvalidateStructure: (data: string) => boolean

  Perform quick validation of FASTQ structure

  Deprecated

  Use validateFastqRecord from validation module

• convertQuality: function

  • convertQuality(
        qualityString: string,
        fromEncoding: QualityEncoding,
        toEncoding: QualityEncoding,
    ): string

    Convert between quality encodings

    Parameters

    • qualityString: string
    • fromEncoding: QualityEncoding
    • toEncoding: QualityEncoding

    Returns string

• validateRecord: function

  • validateRecord(lines: string[]): { valid: boolean; error?: string }

    Validate FASTQ record structure

    Parameters

    • lines: string[]

    Returns { valid: boolean; error?: string }

    Deprecated

    Use validateFastqRecord from validation module instead