---
name: "quorum"
section: "1"
platform: "linux"
package: "quorum"
version: "1.1.2-2"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/quorum"
---

# quorum(1)

run quorum error corrector on fastq file

## NAME

quorum - run quorum error corrector on fastq file

## DESCRIPTION

**quorum** \[options\] \<fastq\> \[fastq\]

## DESCRIPTION

Run the quorum error corrector on the given fastq file. If the **--paired-files** switch is given, quorum expect an even number of files on the command line, each pair files containing pair end reads. The output will be two files (\<prefix\>\_1.fa and \<prefix\>\_2.fa) containing error corrected pair end reads.

## OPTIONS

- **-s**, **--size**

  Mer database size (default 200M)

- **-t**, **--threads**

  Number of threads (default number of cpus)

- **-p**, **--prefix**

  Output prefix (default quorum\_corrected)

- **-k**, **--kmer-len**

  Kmer length (default 24)

- **-q**, **--min-q-char**

  Minimum quality char. Usually 33 or 64 (autodetect)

- **-m**, **--min-quality**

  Minimum above **-q** for high quality base (5)

- **-w**, **--window**

  Window size for trimming

- **-e**, **--error**

  Maximum number of errors in a window

- **--min-count**

  Minimum count for a k-mer to be good

- **--skip**

  Number of bases to skip to find anchor kmer

- **--anchor**

  Numer of good kmer in a row for anchor

- **--anchor-count**

  Minimum count for an anchor kmer

- **--contaminant**

  Contaminant sequences

- **--trim-contaminant**

  Trim sequences with contaminant mers

- **-d**, **--no-discard**

  Do not discard reads, output a single N (false)

- **-P**, **--paired-files**

  Preserve mate pairs in two files

- **--homo-trim**

  Trim homo-polymer on 3' end

- **--debug**

  Display debugging information

- **--version**

  Display version

- **-h**, **--help**

  This message

## AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.