DECIPHER
Tools for curating, analyzing, and manipulating biological sequences
Bioconductor version: Release (3.20)
A toolset for deciphering and managing biological sequences.
Author: Erik Wright
Maintainer: Erik Wright <eswright at pitt.edu>
Citation (from within R, enter
citation("DECIPHER")
):
Installation
To install this package, start R (version "4.4") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("DECIPHER")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("DECIPHER")
Classify Sequences | R Script | |
Design Group-Specific FISH Probes | R Script | |
Design Group-Specific Primers | R Script | |
Design Microarray Probes | R Script | |
Design Primers That Yield Group-Specific Signatures | R Script | |
Detecting Obscure Tandem Repeats in Sequences | R Script | |
Finding Chimeric Sequences | R Script | |
Getting Started DECIPHERing | R Script | |
Growing Phylogenetic Trees with Treeline | R Script | |
Searching biological sequences | R Script | |
The Art of Multiple Sequence Alignment in R | R Script | |
The Double Life of RNA: Uncovering Non-Coding RNAs | R Script | |
The Magic of Gene Finding | R Script | |
Upsize Your Clustering with Clusterize | R Script | |
Reference Manual |
Details
biocViews | Alignment, Clustering, DataImport, GenePrediction, Genetics, ImmunoOncology, Microarray, Microbiome, QualityControl, Sequencing, Software, Visualization, WholeGenome, qPCR |
Version | 3.2.0 |
In Bioconductor since | BioC 2.9 (R-2.14) (13 years) |
License | GPL-3 |
Depends | R (>= 3.5.0), Biostrings(>= 2.59.1), stats |
Imports | methods, DBI, S4Vectors, IRanges, XVector |
System Requirements | |
URL | http://DECIPHER.codes |
See More
Suggests | RSQLite (>= 1.1) |
Linking To | Biostrings, S4Vectors, IRanges, XVector |
Enhances | |
Depends On Me | AssessORF, SynExtend, sangeranalyseR |
Imports Me | mia, openPrimeR, scifer, copyseparator, ensembleTax |
Suggests Me | MicrobiotaProcess, microbial, MiscMetabar |
Links To Me | |
Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
Source Package | DECIPHER_3.2.0.tar.gz |
Windows Binary (x86_64) | DECIPHER_3.2.0.zip |
macOS Binary (x86_64) | DECIPHER_3.2.0.tgz |
macOS Binary (arm64) | DECIPHER_3.1.5.tgz |
Source Repository | git clone https://git.bioconductor.org/packages/DECIPHER |
Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/DECIPHER |
Bioc Package Browser | https://code.bioconductor.org/browse/DECIPHER/ |
Package Short Url | https://bioconductor.org/packages/DECIPHER/ |
Package Downloads Report | Download Stats |