Downloads

DECIPHER is a software toolset that can be used to maintain, analyze, and decipher large amounts of DNA sequence data. DECIPHER is designed to complement other tools that are part of BioConductor, a suite of packages for the R statistical programming language.

Installation

To install DECIPHER, start the latest version of R and enter:
To ensure installation of the latest version, check that R is up-to-date before installation. To begin using DECIPHER see the Tutorials page.

Resources

Package source:	DECIPHER_2.26.0.tar.gz
Mac OS X binary:	DECIPHER_2.26.0.tgz
	DECIPHER_arm_2.26.0.tgz
Windows binary:	DECIPHER_2.26.0.zip
Reference databases:	RDP 10.28 - SSU rRNA Reference Database (690 MB)
	SILVA 117 - LSU rRNA Reference Database (113 MB)
Artificial 16S Chimeras:	Benchmark Datasets (4.8 MB)
Alignment Benchmarks:	HOMSTRAD-mod.tar.gz (427 MB)
	PREFAB-mod.tar.gz (342 MB)
	RNAconTest_v1.tar.gz (226 MB)
Posters:	MathBio 2011 - Find Chimeras (1.3 MB)
	ASM 2012 - Design Primers (2.0 MB)
	ASM 2018 - IDTAXA (1.2 MB)
Training sets for organismal classification (nucleotides): [?]
	Contax v1 (unmodified) (26.7 MB)
	GTDB r207 (modified) (38 MB)
	RDP v18 (unmodified) (20.0 MB)
	RDP v18 (modified) (18.8 MB)
	SILVA SSU r138 (modified) (151.8 MB)
	Warcup v2 (unmodified) (7.4 MB)
	UNITE 2021 (unmodified) (523.6 MB)
	Fungal LSU v11 (unmodified) (12.8 MB)
	PR2 18S v4.13 (150.6 MB)
Training sets for functional classification (amino acids): [?]
	KEGG All [subsampled] (1.1 GB)
	KEGG Actinobacteria (353 MB)
	KEGG Animals (931 MB)
	KEGG Eukaryotes (690 MB)
	KEGG Firmicutes (372 MB)
	KEGG Gammaproteobacteria (412 MB)
	KEGG Prokaryotes [other] (543 MB)
	KEGG Proteobacteria [non-Gamma] (601 MB)