DOI: 10.18129/B9.bioc.RIPSeeker    

This is the development version of RIPSeeker; to use it, please install the devel version of Bioconductor.

RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments

Bioconductor version: Development (3.10)

Infer and discriminate RIP peaks from RIP-seq alignments using two-state HMM with negative binomial emission probability. While RIPSeeker is specifically tailored for RIP-seq data analysis, it also provides a suite of bioinformatics tools integrated within this self-contained software package comprehensively addressing issues ranging from post-alignments processing to visualization and annotation.

Author: Yue Li

Maintainer: Yue Li <yueli at>

Citation (from within R, enter citation("RIPSeeker")):


To install this package, start R (version "3.6") and enter:

if (!requireNamespace("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:



PDF R Script RIPSeeker: a statistical package for identifying protein-associated transcripts from RIP-seq experiments
PDF   Reference Manual
Text   NEWS


biocViews RIPSeq, Sequencing, Software
Version 1.25.0
In Bioconductor since BioC 2.12 (R-3.0) (6.5 years)
License GPL-2
Depends R (>= 2.15), methods, S4Vectors(>= 0.9.25), IRanges, GenomicRanges, SummarizedExperiment, Rsamtools, GenomicAlignments, rtracklayer
Suggests biomaRt, ChIPpeakAnno, parallel, GenomicFeatures
Depends On Me RIPSeekerData
Imports Me
Suggests Me
Links To Me
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Source Package RIPSeeker_1.25.0.tar.gz
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Mac OS X 10.11 (El Capitan) RIPSeeker_1.25.0.tgz
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