---
name: "predictnls"
section: "1"
platform: "linux"
package: "predictnls"
version: "1.0.20-8"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/predictnls"
---

# predictnls(1)

prediction and analysis of nuclear localization signals

## NAME

predictnls - prediction and analysis of nuclear localization signals

## SYNOPSIS

predictnls \[OPTION\]

## DESCRIPTION

predictnls is a method for the prediction and analysis of nuclear localization signals (NLS)

### Output format

Self-annotating, see example outputs in */usr/share/doc/predictnls/examples*.

## REFERENCES

- Cokol, M., Nair, R., and Rost, B. (2000). Finding nuclear localization signals. EMBO Rep, 1(5), 411-5.

  ## OPTIONS

- debug=\[0\|1\]

  - fileIn=\<FILE\>

  Input file in fasta format. Required. Only one sequence per file.

- fileOut=\<FILE\>

  Output file. Required.

- help

  - html=\[0\|1\|2\]

  Output format. *0* - text; *1* - html; *2* - both. Default: **0**.

  If both outputs are requested, the text file is named according to the value of **fileOut** and the html file gets an \`.html' extension.

- fileSummary=\<FILE\>

  If set \`1' is written into this file if an NLS is found, \`0' otherwise.  Optional.

- nlsdat=\<FILE\>

  Raw nls data, optional

- version

  Print version.

## EXAMPLES

`"predictnls fileIn=/usr/share/doc/predictnls/examples/O49931.fa fileOut=/tmp/O49931.nls"`

## ENVIRONMENT

- PREDICTNLSCONF

  Location of predictnlsrc configuration file to use overriding other configuration files

## FILES

- */usr/share/predictnls/predictnlsrc.default*

  Default configuration file. See this file for a description of the parameters.

- */etc/predictnlsrc*

  System configuration file overriding values in */usr/share/predictnls/predictnlsrc.default*

- *~/.predictnlsrc*

  User configuration file overriding values in */etc/predictnlsrc*

- *$PREDICTNLSCONF*

  If this environment variable is set *~/.predictnlsrc* is disregarded and the value of the variable is read for configuration options overriding */etc/predictnlsrc*

## AUTHOR

R. Nair

## COPYRIGHT AND LICENSE

(C) Copyright 2010, R. Nair  License GPLv3+: GNU GPL version 3 or later \<http://gnu.org/licenses/gpl.html\>.  This is free software: you are free to change and redistribute it.  There is NO WARRANTY, to the extent permitted by law.