The crisprVerse is a collection of packages for CRISPR guide RNA (gRNA) design that can easily be installed
with the crisprVerse package. This provides
a convenient way of downloading and installing all crisprVerse packages
with a single R command.
The package can be installed from the Bioconductor devel branch using the following commands in an R session:
if (!requireNamespace("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install(version="devel")
BiocManager::install("crisprVerse")The core crisprVerse includes the packages that are commonly used for
gRNA design, and are attached when you attach the crisprVerse package:
library(crisprVerse)You can check that all crisprVerse packages are up-to-date
with the function crisprVerse_update().
The following packages are installed and loaded with the crisprVerse package:
GuideSet objects.sessionInfo()## R version 4.6.0 RC (2026-04-17 r89917)
## Platform: x86_64-pc-linux-gnu
## Running under: Ubuntu 24.04.4 LTS
##
## Matrix products: default
## BLAS: /home/biocbuild/bbs-3.23-bioc/R/lib/libRblas.so
## LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.12.0 LAPACK version 3.12.0
##
## locale:
## [1] LC_CTYPE=en_US.UTF-8 LC_NUMERIC=C
## [3] LC_TIME=en_GB LC_COLLATE=C
## [5] LC_MONETARY=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8
## [7] LC_PAPER=en_US.UTF-8 LC_NAME=C
## [9] LC_ADDRESS=C LC_TELEPHONE=C
## [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
##
## time zone: America/New_York
## tzcode source: system (glibc)
##
## attached base packages:
## [1] stats graphics grDevices utils datasets methods base
##
## other attached packages:
## [1] crisprViz_1.14.0 crisprDesign_1.14.0 crisprScore_1.16.0
## [4] crisprScoreData_1.15.0 ExperimentHub_3.2.0 AnnotationHub_4.2.0
## [7] BiocFileCache_3.2.0 dbplyr_2.5.2 BiocGenerics_0.58.0
## [10] generics_0.1.4 crisprBowtie_1.16.0 crisprBase_1.16.0
## [13] crisprVerse_1.14.0 BiocStyle_2.40.0
##
## loaded via a namespace (and not attached):
## [1] RColorBrewer_1.1-3 rstudioapi_0.18.0
## [3] jsonlite_2.0.0 magrittr_2.0.5
## [5] GenomicFeatures_1.64.0 farver_2.1.2
## [7] rmarkdown_2.31 BiocIO_1.22.0
## [9] vctrs_0.7.3 memoise_2.0.1
## [11] Rsamtools_2.28.0 RCurl_1.98-1.18
## [13] base64enc_0.1-6 htmltools_0.5.9
## [15] S4Arrays_1.12.0 progress_1.2.3
## [17] curl_7.1.0 SparseArray_1.12.0
## [19] Formula_1.2-5 sass_0.4.10
## [21] bslib_0.10.0 htmlwidgets_1.6.4
## [23] Gviz_1.56.0 httr2_1.2.2
## [25] cachem_1.1.0 GenomicAlignments_1.48.0
## [27] lifecycle_1.0.5 pkgconfig_2.0.3
## [29] Matrix_1.7-5 R6_2.6.1
## [31] fastmap_1.2.0 MatrixGenerics_1.24.0
## [33] digest_0.6.39 colorspace_2.1-2
## [35] AnnotationDbi_1.74.0 S4Vectors_0.50.0
## [37] Hmisc_5.2-5 GenomicRanges_1.64.0
## [39] RSQLite_2.4.6 filelock_1.0.3
## [41] randomForest_4.7-1.2 httr_1.4.8
## [43] abind_1.4-8 compiler_4.6.0
## [45] Rbowtie_1.52.0 bit64_4.8.0
## [47] backports_1.5.1 htmlTable_2.5.0
## [49] S7_0.2.2 BiocParallel_1.46.0
## [51] DBI_1.3.0 biomaRt_2.68.0
## [53] rappdirs_0.3.4 DelayedArray_0.38.0
## [55] rjson_0.2.23 tools_4.6.0
## [57] foreign_0.8-91 otel_0.2.0
## [59] nnet_7.3-20 glue_1.8.1
## [61] restfulr_0.0.16 grid_4.6.0
## [63] checkmate_2.3.4 cluster_2.1.8.2
## [65] gtable_0.3.6 BSgenome_1.80.0
## [67] tzdb_0.5.0 ensembldb_2.36.0
## [69] data.table_1.18.2.1 hms_1.1.4
## [71] XVector_0.52.0 BiocVersion_3.23.1
## [73] pillar_1.11.1 stringr_1.6.0
## [75] dplyr_1.2.1 lattice_0.22-9
## [77] deldir_2.0-4 rtracklayer_1.72.0
## [79] bit_4.6.0 biovizBase_1.60.0
## [81] tidyselect_1.2.1 Biostrings_2.80.0
## [83] knitr_1.51 gridExtra_2.3
## [85] bookdown_0.46 ProtGenerics_1.44.0
## [87] IRanges_2.46.0 Seqinfo_1.2.0
## [89] SummarizedExperiment_1.42.0 stats4_4.6.0
## [91] xfun_0.57 Biobase_2.72.0
## [93] matrixStats_1.5.0 stringi_1.8.7
## [95] UCSC.utils_1.8.0 lazyeval_0.2.3
## [97] yaml_2.3.12 evaluate_1.0.5
## [99] codetools_0.2-20 cigarillo_1.2.0
## [101] interp_1.1-6 tibble_3.3.1
## [103] BiocManager_1.30.27 cli_3.6.6
## [105] rpart_4.1.27 reticulate_1.46.0
## [107] jquerylib_0.1.4 dichromat_2.0-0.1
## [109] Rcpp_1.1.1-1.1 GenomeInfoDb_1.48.0
## [111] png_0.1-9 XML_3.99-0.23
## [113] parallel_4.6.0 ggplot2_4.0.3
## [115] readr_2.2.0 blob_1.3.0
## [117] prettyunits_1.2.0 jpeg_0.1-11
## [119] latticeExtra_0.6-31 AnnotationFilter_1.36.0
## [121] bitops_1.0-9 txdbmaker_1.8.0
## [123] VariantAnnotation_1.58.0 scales_1.4.0
## [125] crayon_1.5.3 rlang_1.2.0
## [127] KEGGREST_1.52.0