---
name: "art"
section: "1"
platform: "linux"
package: "artemis"
version: "18.2.0+dfsg-4"
release: "Debian 13 (Trixie)"
platforms: ["linux"]
url: "https://new.carta.tech/art"
---

# art(1)

Artemis genome browser and annotation tool

## NAME

art - Artemis genome browser and annotation tool

## SYNOPSIS

**art** \[*options*\] *SEQUENCE\_FILE* \[*+FEATURE\_FILE*...\]

## OPTIONS

        SEQUENCE\_FILE                  An EMBL, GenBank, FASTA, or GFF3 file\
         FEATURE\_FILE                   An Artemis TAB file, or GFF file

        \-options FILE                  Read a text file of options from FILE\
         \-debug                         Run using the debugging JVM instead\
         \-fast \| -fast64                Use the FastVM (hp Tru64 UNIX) with 32/64 bit pointers

        \-Dblack\_belt\_mode=?            Keep warning messages to a minimum \[true,false\]\
         \-Doffset=XXX                   Open viewer at base position XXX \[integer \>= 1\]\
         \-Duserplot=FILE\[,FILE2\]        Open one or more userplots\
         \-Dloguserplot=FILE\[,FILE2\]     Open one or more userplots, take log(data)\
         \-Dbam=FILE\[,FILE2,...\]         Open one or more BAM, VCF or BCF files\
         \-DbamClone=n                   Open all BAMs in multiple (n \> 1) panels\
         \-Dbam\[1,2,..\]=FILE\[,FILE2,..\]  Open BAMs in separate panels\
         \-Dshow\_snps                    Show SNP marks in BamView\
         \-Dshow\_snp\_plot                Open SNP plot in BamView\
         \-Dshow\_cov\_plot                Open coverage plot in BamView\
         \-Dshow\_forward\_lines=?         Hide/show forward frame lines \[true,false\]\
         \-Dshow\_reverse\_lines=?         Hide/show reverse frame lines \[true,false\]\
         \-Dchado="h:p/d?u"              Get Artemis to open this CHADO database\
         \-Dread\_only                    Open CHADO database read-only

## EXAMPLES

        % art AJ006275.embl \
         % art contigs.fa +annotation.gff +islands.tab\
         % art -Dblack\_belt\_mode=true -Dbam=ecoli\_hiseq.bam E\_coli\_K12.gbk\
         % art -Duserplot=repeatmap.plot,geecee.plot Plasmid.gff3

## SEE ALSO

        http://www.sanger.ac.uk/resources/software/artemis/

[**act**(1)](/act/1.md), [**dnaplotter**(1)](/dnaplotter/1.md)