Downloads
DECIPHER is a software 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 programming language.Installation
To install DECIPHER, start the latest version of R and enter:
if (!requireNamespace("BiocManager", quietly=TRUE))
install.packages("BiocManager")
BiocManager::install("DECIPHER")
To ensure installation of the latest version, check that R is up-to-date before installation. To begin using DECIPHER see the Tutorials page.
install.packages("BiocManager")
BiocManager::install("DECIPHER")
Resources
| Package source: | DECIPHER_3.6.0.tar.gz |
| Mac OS X binary: | DECIPHER_3.6.0.tgz (Intel) |
| DECIPHER_arm_3.6.0.tgz (Apple silicon) | |
| Windows binary: | DECIPHER_3.6.0.zip |
| Alignment Benchmarks: | HOMSTRAD-mod.tar.gz (448 MB) |
| PREFAB-mod.tar.gz (359 MB) | |
| RNAconTest_v1.zip (226 MB) | |
| Training sets for organismal classification (nucleotides): | |
| Contax v1 (unmodified) (26 MB) | |
| GTDB r226 (modified) (75 MB) | |
| RDP v18 (unmodified) (20 MB) | |
| RDP v18 (modified) (18 MB) | |
| SILVA SSU r138.2 (modified) (299 MB) | |
| Warcup v2 (unmodified) (7 MB) | |
| UNITE 2025 (unmodified) (120 MB) | |
| Fungal LSU v11 (unmodified) (12 MB) | |
| PR2 18S v4.13 (150 MB) | |
| Training sets for functional classification (proteins): | |
| KEGG Actinobacteria (441 MB) | |
| KEGG Alphaproteobacteria (380 MB) | |
| KEGG Animals (1.3 GB) | |
| KEGG Archaea (130 MB) | |
| KEGG Bacteroidota (229 MB) | |
| KEGG Firmicutes (481 MB) | |
| KEGG Gammaproteobacteria (440 MB) | |
| KEGG Bacteria [other] (348 MB) | |
| KEGG Eukarya [other] (438 MB) | |
| KEGG Plants (323 MB) | |
| KEGG Proteobacteria [other] (388 MB) | |