Running examples in ‘bulkAnalyseR-Ex.R’ failed
The error most likely occurred in:

> ### Name: DEanalysis
> ### Title: Perform differential expression (DE) analysis on an expression
> ###   matrix
> ### Aliases: DEanalysis DEanalysis_edger DEanalysis_deseq2
> 
> ### ** Examples
> 
> expression.matrix.preproc <- as.matrix(read.csv(
+   system.file("extdata", "expression_matrix_preprocessed.csv", package = "bulkAnalyseR"), 
+   row.names = 1
+ ))[1:100, 1:4]
> 
> anno <- AnnotationDbi::select(
+   getExportedValue('org.Mm.eg.db', 'org.Mm.eg.db'),
+   keys = rownames(expression.matrix.preproc),
+   keytype = 'ENSEMBL',
+   columns = 'SYMBOL'
+ ) %>%
+   dplyr::distinct(ENSEMBL, .keep_all = TRUE) %>%
+   dplyr::mutate(NAME = ifelse(is.na(SYMBOL), ENSEMBL, SYMBOL))
Error in (function (cond)  : 
  error in evaluating the argument 'x' in selecting a method for function 'select': there is no package called ‘org.Mm.eg.db’
Calls: %>% ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Running examples in ‘bulkAnalyseR-Ex.R’ failed
The error most likely occurred in:

> ### Name: DEanalysis
> ### Title: Perform differential expression (DE) analysis on an expression
> ###   matrix
> ### Aliases: DEanalysis DEanalysis_edger DEanalysis_deseq2
> 
> ### ** Examples
> 
> expression.matrix.preproc <- as.matrix(read.csv(
+   system.file("extdata", "expression_matrix_preprocessed.csv", package = "bulkAnalyseR"), 
+   row.names = 1
+ ))[1:100, 1:4]
> 
> anno <- AnnotationDbi::select(
+   getExportedValue('org.Mm.eg.db', 'org.Mm.eg.db'),
+   keys = rownames(expression.matrix.preproc),
+   keytype = 'ENSEMBL',
+   columns = 'SYMBOL'
+ ) %>%
+   dplyr::distinct(ENSEMBL, .keep_all = TRUE) %>%
+   dplyr::mutate(NAME = ifelse(is.na(SYMBOL), ENSEMBL, SYMBOL))
Error in (function (cond)  : 
  error in evaluating the argument 'x' in selecting a method for function 'select': there is no package called ‘org.Mm.eg.db’
Calls: %>% ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
Package suggested but not available for checking: ‘org.Mm.eg.db’
installed size is  6.2Mb
  sub-directories of 1Mb or more:
    doc       2.3Mb
    extdata   3.4Mb
Running examples in ‘bulkAnalyseR-Ex.R’ failed
The error most likely occurred in:

> ### Name: DEanalysis
> ### Title: Perform differential expression (DE) analysis on an expression
> ###   matrix
> ### Aliases: DEanalysis DEanalysis_edger DEanalysis_deseq2
> 
> ### ** Examples
> 
> expression.matrix.preproc <- as.matrix(read.csv(
+   system.file("extdata", "expression_matrix_preprocessed.csv", package = "bulkAnalyseR"), 
+   row.names = 1
+ ))[1:100, 1:4]
> 
> anno <- AnnotationDbi::select(
+   getExportedValue('org.Mm.eg.db', 'org.Mm.eg.db'),
+   keys = rownames(expression.matrix.preproc),
+   keytype = 'ENSEMBL',
+   columns = 'SYMBOL'
+ ) %>%
+   dplyr::distinct(ENSEMBL, .keep_all = TRUE) %>%
+   dplyr::mutate(NAME = ifelse(is.na(SYMBOL), ENSEMBL, SYMBOL))
Error in (function (cond)  : 
  error in evaluating the argument 'x' in selecting a method for function 'select': there is no package called ‘org.Mm.eg.db’
Calls: %>% ... loadNamespace -> withRestarts -> withOneRestart -> doWithOneRestart
Execution halted
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc       2.3Mb
    extdata   3.4Mb
installed size is  6.1Mb
  sub-directories of 1Mb or more:
    doc       2.3Mb
    extdata   3.4Mb