---
name: "density-score-by-residue"
section: "1"
platform: "linux"
package: "coot"
version: "1.1.15+dfsg-1+b1"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/density-score-by-residue"
---

# density-score-by-residue(1)

program to...

## NAME

density-score-by-residue - program to...

## SYNOPSIS

**density-score-by-residue**

## DESCRIPTION

**density-score-by-residue** is a part of the Coot suite of programs.

## OPTIONS

These programs follow the usual GNU command line syntax, with long options starting with two dashes (-).  A summary of options is included below.

- **--pdbin=***file*

  Input PDB file name

- **--hklin=***file*

  MTZ file containing structure factors

- **--f=***label*

  label of MTZ file column containing structure factor amplitudes

- **--phi=***label*

  label of MTZ file column containing structure factor phases

- **--weight=label**

  Label of weight column in MTZ file

- **--score-atoms**

  - **--cut**

  cut out badly scoring residues

- **--cut-level=***level*

  Set (absolute) density level below which we can cut out residues

- **--pdbout=***file*

  Output PDB file name

## SEE ALSO

**bfactan**(1), [**coot**(1)](/coot/1.md), [**findligand**(1)](/findligand/1.md), [**findwaters**(1)](/findwaters/1.md), [**fix-nomenclature-errors**(1)](/fix-nomenclature-errors/1.md), [**lidia**(1)](/lidia/1.md).\

## AUTHOR

**density-score-by-residue** is written by Paul Emsley.

This manual page was written by Morten Kjeldgaard \<mok@bioxray.dk\>