Description
antiSMASH allows the rapid genome-wide identification, annotation and analysis of secondary metabolite biosynthesis gene clusters.
Input
nucleotide sequence file (annotated)
*.{gbk, gb, gbff, genbank, embl, fasta, fna}
Downloaded AntiSMASH databases (e.g. in the AntiSMASH installation directory
“data/databases”)
*/
A local copy of an AntiSMASH installation folder. This is required when running with
docker and singularity (not required for conda), due to attempted ‘modifications’ of
files during database checks in the installation directory, something that cannot
be done in immutable docker/singularity containers. Therefore, a local installation
directory needs to be mounted (including all modified files from the downloading step)
to the container as a workaround.
*/
Output
Tables with MIBiG hits in HTML format
knownclusterblast/region*/ctg*.html
SVG images showing the % identity of the aligned hits against their queries
svg/clusterblast*.svg
SVG images showing the % identity of the aligned hits against their queries
svg/knownclusterblast*.svg
Nucleotide sequence and annotations in GenBank format; converted from input file
*.gbk
Nucleotide sequence and annotations in JSON format; converted from GenBank file (gbk_input)
*.json
Nucleotide sequence and annotations in GenBank format; one file per antiSMASH hit
*region*.gbk
Raw BLAST output of known clusters previously predicted by antiSMASH using the built-in ClusterBlast algorithm
clusterblastoutput.txt
Raw BLAST output of known clusters of the MIBiG database
knownclusterblastoutput.txt