DOI: 10.18129/B9.bioc.hiReadsProcessor    

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

Functions to process LM-PCR reads from 454/Illumina data

Bioconductor version: Development (3.10)

hiReadsProcessor contains set of functions which allow users to process LM-PCR products sequenced using any platform. Given an excel/txt file containing parameters for demultiplexing and sample metadata, the functions automate trimming of adaptors and identification of the genomic product. Genomic products are further processed for QC and abundance quantification.

Author: Nirav V Malani <malnirav at gmail.com>

Maintainer: Nirav V Malani <malnirav at gmail.com>

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


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

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

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


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biocViews Preprocessing, Sequencing, Software
Version 1.21.0
In Bioconductor since BioC 3.0 (R-3.1) (4.5 years)
License GPL-3
Depends Biostrings, GenomicAlignments, BiocParallel, hiAnnotator, R (>= 3.0)
Imports sonicLength, dplyr, BiocGenerics, GenomicRanges, rSFFreader, readxl, methods
Suggests knitr, testthat
SystemRequirements BLAT, UCSC hg18 in 2bit format for BLAT
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Source Package
Windows Binary
Mac OS X 10.11 (El Capitan)
Source Repository git clone https://git.bioconductor.org/packages/hiReadsProcessor
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/hiReadsProcessor
Package Short Url http://bioconductor.org/packages/hiReadsProcessor/
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