---
name: "wtdbg-cns"
section: "1"
platform: "linux"
package: "wtdbg2"
version: "2.5-10"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/wtdbg-cns"
---

# wtdbg-cns(1)

Consensuser for wtdbg

## NAME

wtdbg-cns - Consensuser for wtdbg

## SYNOPSIS

**wtdbg-cns** \[*options*\]

## DESCRIPTION

WTDBG-CNS: Consensuser for wtdbg Author: Jue Ruan \<ruanjue@gmail.com\> Version: 1.1

## OPTIONS

- **-t** \<int\>

  Number of threads, \[1\]

**-i** \<string\> Input file(s) \*.utg.cns from wtdbg, +, \[STDIN\]

**-o** \<string\> Output files, \[STDOUT\]

- **-f**

  Force overwrite

- **-j** \<int\>

  Expected length of node, or say the overlap length of two adject units in layout file, \[1000\] bp

**-----------------BEG** DBG options---------------------------------

- **-k** \<int\>

  Kmer size for long reads, \[15\]

- **-Z** \<int\>

  Z-cutoff, drop the lower  (score / \<-X\>), \[4\]

- **-W** \<int\>

  W-cutoff, drop the lagger (position), \[48\] In DAG correction, **-W** set the bandwidth of alignment

- **-H** \<int\>

  High coverage bonus, \[1\]

- **-L** \<int\>

  High coverage cutoff = avg\_cov / \<-L\> \[10\]

- **-c** \<int\>

  Candidate strategy, 0: best-kmers, 1: median length, 2: first (include), 3: first (exclude), 4: longest, 5, shortest, \[0\] In DAG correction, force to use strategy 2

**-----------------END** DBG options---------------------------------

- **-M** \<int\>

  Match score, \[2\]

- **-X** \<int\>

  Mismatch score, \[-7\]

- **-I** \<int\>

  Insertion score, \[-3\]

- **-D** \<int\>

  Deletion score, \[-4\]

- **-E** \<int\>

  Gap extension score, \[-2\]

- **-m** \<int\>

  1: DBG correction; 2: DAG correction, \[1\]

- **-S** \<int\>

  whether to correct structure before error correction, \[1\]

- **-v**

  Verbose

- **-V**

  Print version information and then exit

## AUTHOR

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