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This is the development version of EDIRquery; for the stable release version, see EDIRquery.

Query the EDIR Database For Specific Gene

Bioconductor version: Development (3.20)

EDIRquery provides a tool to search for genes of interest within the Exome Database of Interspersed Repeats (EDIR). A gene name is a required input, and users can additionally specify repeat sequence lengths, minimum and maximum distance between sequences, and whether to allow a 1-bp mismatch. Outputs include a summary of results by repeat length, as well as a dataframe of query results. Example data provided includes a subset of the data for the gene GAA (ENSG00000171298). To query the full database requires providing a path to the downloaded database files as a parameter.

Author: Laura D.T. Vo Ngoc [aut, cre]

Maintainer: Laura D.T. Vo Ngoc <doan.vongoc at>

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


To install this package, start R (version "4.4") and enter:

if (!require("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:

EDIRquery PDF R Script
Reference Manual PDF


biocViews Genetics, SequenceMatching, Software
Version 1.5.0
In Bioconductor since BioC 3.17 (R-4.3) (1 year)
License GPL-3
Depends R (>= 4.2.0)
Imports tibble (>= 3.1.6), tictoc (>= 1.0.1), utils (>= 4.1.3), stats (>= 4.1.3), readr (>= 2.1.2), InteractionSet(>= 1.22.0), GenomicRanges(>= 1.46.1)
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Suggests knitr, rmarkdown, testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package EDIRquery_1.5.0.tar.gz
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macOS Binary (arm64) EDIRquery_1.5.0.tgz
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