---
name: "makemat"
section: "1"
platform: "linux"
package: "blast2"
version: "1:2.2.26.20120620-8"
release: "Debian 8 (Jessie)"
platforms: ["linux"]
url: "https://new.carta.tech/makemat"
---

# makemat(1)

convert binary profiles into portable ASCII form

## NAME

makemat - convert binary profiles into portable ASCII form

## SYNOPSIS

**makemat** \[**-**\] \[**-E** *N*\] \[**-G** *N*\] \[**-H**\] \[**-P** *filename*\] \[**-S** *X*\] \[**-U** *str*\] \[**-d** *str*\] \[**-z** *N*\]

## DESCRIPTION

**makemat** converts a collection of binary profiles, created by the **-C** option of PSI-BLAST, into portable ASCII form.

## OPTIONS

A summary of options is included below.

- **-**

  Print usage message

- **-E** *N*

  Cost to extend a gap (default = **1**)

- **-G** *N*

  Cost to open a gap (default = **11**)

- **-H**

  Print help; overrides all other arguments

- **-P** *filename*

  Database name for profile database (default = **stdin**)

- **-S** *X*

  Scaling factor for matrix outputs to avoid round-off problems (default = **100**)

- **-U** *str*

  Underlying Matrix (default = **BLOSUM62**)

- **-d** *str*

  Underlying sequence database used to make profiles (default = **nr**)

- **-z** *N*

  Effective length of the profile database (0 for length of **-d** option)

## AUTHOR

The National Center for Biotechnology Information.

## SEE ALSO

[**blast**(1)](/blast/1.md), [**copymat**(1)](/copymat/1.md), /usr/share/doc/blast2/impala.html