MatrixEQTL
Matrix eQTL: Ultra Fast eQTL Analysis via Large Matrix Operations
v2.3
·
Dec 22, 2019
·
LGPL-3
Description
Matrix eQTL is designed for fast eQTL analysis on large datasets. Matrix eQTL can test for association between genotype and gene expression using linear regression with either additive or ANOVA genotype effects. The models can include covariates to account for factors as population stratification, gender, and clinical variables. It also supports models with heteroscedastic and/or correlated errors, false discovery rate estimation and separate treatment of local (cis) and distant (trans) eQTLs. For more details see Shabalin (2012) <doi:10.1093/bioinformatics/bts163>.
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CRAN Check Status
14
NOTE
Show all 14 flavors
| Flavor | Status |
|---|---|
| r-devel-linux-x86_64-debian-clang | NOTE |
| r-devel-linux-x86_64-debian-gcc | NOTE |
| r-devel-linux-x86_64-fedora-clang | NOTE |
| r-devel-linux-x86_64-fedora-gcc | NOTE |
| r-devel-macos-arm64 | NOTE |
| r-devel-windows-x86_64 | NOTE |
| r-oldrel-macos-arm64 | NOTE |
| r-oldrel-macos-x86_64 | NOTE |
| r-oldrel-windows-x86_64 | NOTE |
| r-patched-linux-x86_64 | NOTE |
| r-release-linux-x86_64 | NOTE |
| r-release-macos-arm64 | NOTE |
| r-release-macos-x86_64 | NOTE |
| r-release-windows-x86_64 | NOTE |
Check details (16 non-OK)
NOTE
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Andrey A Shabalin <andrey.shabalin@gmail.com>’ Package CITATION file contains call(s) to old-style personList() or as.personList(). Please use c() on person objects instead. Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
NOTE
r-devel-linux-x86_64-debian-clang
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Andrey A Shabalin <andrey.shabalin@gmail.com>’ Package CITATION file contains call(s) to old-style personList() or as.personList(). Please use c() on person objects instead. Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
NOTE
r-devel-linux-x86_64-debian-gcc
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
Check History
NOTE 0 OK · 14 NOTE · 0 WARNING · 0 ERROR · 0 FAILURE Mar 10, 2026
NOTE
r-devel-linux-x86_64-debian-clang
CRAN incoming feasibility
Maintainer: ‘Andrey A Shabalin <andrey.shabalin@gmail.com>’ Package CITATION file contains call(s) to old-style personList() or as.personList(). Please use c() on person objects instead. Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
NOTE
r-devel-linux-x86_64-debian-gcc
CRAN incoming feasibility
Maintainer: ‘Andrey A Shabalin <andrey.shabalin@gmail.com>’ Package CITATION file contains call(s) to old-style personList() or as.personList(). Please use c() on person objects instead. Package CITATION file contains call(s) to old-style citEntry(). Please use bibentry() instead.
NOTE
r-devel-linux-x86_64-fedora-clang
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-linux-x86_64-fedora-gcc
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-devel-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-patched-linux-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-linux-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-macos-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-release-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-macos-arm64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-macos-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
NOTE
r-oldrel-windows-x86_64
Rd files
checkRd: (-1) Matrix_eQTL_main.Rd:31: Lost braces; missing escapes or markup?
31 | {genepos} in the call of \code{Matrix_eQTL_main} function.
| ^
checkRd: (-1) Matrix_eQTL_main.Rd:35: Lost braces; missing escapes or markup?
35 | the data frames \code{snpspos} and {genepos}.
| ^
Reverse Dependencies (2)
depends
imports
Dependency Network
Version History
new
2.3
Mar 10, 2026
new
1.0.5
Jun 28, 2011