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-3.24-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_1.15.0 crisprDesign_1.15.0 crisprScore_1.17.0
## [4] crisprScoreData_1.15.0 ExperimentHub_3.3.0 AnnotationHub_4.3.0
## [7] BiocFileCache_3.3.0 dbplyr_2.5.2 BiocGenerics_0.59.0
## [10] generics_0.1.4 crisprBowtie_1.17.0 crisprBase_1.17.0
## [13] crisprVerse_1.15.0 BiocStyle_2.41.0
##
## 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_1.65.0 farver_2.1.2
## [7] rmarkdown_2.31 BiocIO_1.23.3
## [9] vctrs_0.7.3 memoise_2.0.1
## [11] Rsamtools_2.29.0 RCurl_1.98-1.18
## [13] base64enc_0.1-6 htmltools_0.5.9
## [15] S4Arrays_1.13.0 BiocBaseUtils_1.15.0
## [17] progress_1.2.3 curl_7.1.0
## [19] SparseArray_1.13.0 Formula_1.2-5
## [21] sass_0.4.10 bslib_0.10.0
## [23] htmlwidgets_1.6.4 Gviz_1.57.0
## [25] httr2_1.2.2 cachem_1.1.0
## [27] GenomicAlignments_1.49.0 lifecycle_1.0.5
## [29] pkgconfig_2.0.3 Matrix_1.7-5
## [31] R6_2.6.1 fastmap_1.2.0
## [33] MatrixGenerics_1.25.0 digest_0.6.39
## [35] colorspace_2.1-2 AnnotationDbi_1.75.0
## [37] S4Vectors_0.51.1 Hmisc_5.2-5
## [39] GenomicRanges_1.65.0 RSQLite_2.4.6
## [41] filelock_1.0.3 randomForest_4.7-1.2
## [43] httr_1.4.8 abind_1.4-8
## [45] compiler_4.6.0 Rbowtie_1.53.0
## [47] bit64_4.8.0 backports_1.5.1
## [49] htmlTable_2.5.0 S7_0.2.2
## [51] BiocParallel_1.47.0 DBI_1.3.0
## [53] biomaRt_2.69.0 rappdirs_0.3.4
## [55] DelayedArray_0.39.0 rjson_0.2.23
## [57] tools_4.6.0 foreign_0.8-91
## [59] otel_0.2.0 nnet_7.3-20
## [61] glue_1.8.1 restfulr_0.0.16
## [63] grid_4.6.0 checkmate_2.3.4
## [65] cluster_2.1.8.2 gtable_0.3.6
## [67] BSgenome_1.81.0 tzdb_0.5.0
## [69] ensembldb_2.37.0 data.table_1.18.2.1
## [71] hms_1.1.4 XVector_0.53.0
## [73] BiocVersion_3.24.0 pillar_1.11.1
## [75] stringr_1.6.0 dplyr_1.2.1
## [77] lattice_0.22-9 deldir_2.0-4
## [79] rtracklayer_1.73.0 bit_4.6.0
## [81] biovizBase_1.61.0 tidyselect_1.2.1
## [83] Biostrings_2.81.0 knitr_1.51
## [85] gridExtra_2.3 bookdown_0.46
## [87] ProtGenerics_1.45.0 IRanges_2.47.0
## [89] Seqinfo_1.3.0 SummarizedExperiment_1.43.0
## [91] stats4_4.6.0 xfun_0.57
## [93] Biobase_2.73.1 matrixStats_1.5.0
## [95] stringi_1.8.7 UCSC.utils_1.9.0
## [97] lazyeval_0.2.3 yaml_2.3.12
## [99] evaluate_1.0.5 codetools_0.2-20
## [101] cigarillo_1.3.0 interp_1.1-6
## [103] tibble_3.3.1 BiocManager_1.30.27
## [105] cli_3.6.6 rpart_4.1.27
## [107] reticulate_1.46.0 jquerylib_0.1.4
## [109] dichromat_2.0-0.1 Rcpp_1.1.1-1.1
## [111] GenomeInfoDb_1.49.0 png_0.1-9
## [113] XML_3.99-0.23 parallel_4.6.0
## [115] ggplot2_4.0.3 readr_2.2.0
## [117] blob_1.3.0 prettyunits_1.2.0
## [119] jpeg_0.1-11 latticeExtra_0.6-31
## [121] AnnotationFilter_1.37.0 bitops_1.0-9
## [123] txdbmaker_1.9.0 VariantAnnotation_1.59.0
## [125] scales_1.4.0 crayon_1.5.3
## [127] rlang_1.2.0 KEGGREST_1.53.0