diff options
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 338 |
1 files changed, 317 insertions, 21 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 28522e7c13..b4be8aee15 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -1,6 +1,6 @@ ;;; GNU Guix --- Functional package management for GNU ;;; Copyright © 2016, 2017, 2018, 2019, 2020 Ricardo Wurmus <rekado@elephly.net> -;;; Copyright © 2016, 2017, 2018 Roel Janssen <roel@gnu.org> +;;; Copyright © 2016, 2017, 2018, 2020 Roel Janssen <roel@gnu.org> ;;; Copyright © 2017, 2018, 2019 Tobias Geerinckx-Rice <me@tobias.gr> ;;; Copyright © 2019 Simon Tournier <zimon.toutoune@gmail.com> ;;; @@ -493,6 +493,30 @@ annotations for the genome of the model mouse Mus musculus.") by UCSC (hg19, February 2009) and stored in Biostrings objects.") (license license:artistic2.0))) +(define-public r-bsgenome-hsapiens-ucsc-hg38 + (package + (name "r-bsgenome-hsapiens-ucsc-hg38") + (version "1.4.1") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "BSgenome.Hsapiens.UCSC.hg38" + version 'annotation)) + (sha256 + (base32 + "1ql08pvi4vv0ynvg4qs9kysw1c7s3crkgin6zxvgzqk6fray9mvi")))) + (properties + `((upstream-name . "BSgenome.Hsapiens.UCSC.hg38"))) + (build-system r-build-system) + (propagated-inputs + `(("r-bsgenome" ,r-bsgenome))) + (home-page + "https://www.bioconductor.org/packages/BSgenome.Hsapiens.UCSC.hg38/") + (synopsis "Full genome sequences for Homo sapiens") + (description + "This package provides full genome sequences for Homo sapiens (Human) +as provided by UCSC (hg38, Dec. 2013) and stored in Biostrings objects.") + (license license:artistic2.0))) + (define-public r-ensdb-hsapiens-v75 (package (name "r-ensdb-hsapiens-v75") @@ -718,6 +742,30 @@ annotations.") "This is a manifest package for Illumina's EPIC methylation arrays.") (license license:artistic2.0))) +(define-public r-ideoviz + (package + (name "r-ideoviz") + (version "1.22.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "IdeoViz" version)) + (sha256 + (base32 + "0rsz6dawrx5qdrypxs2hgihmx3kbpdg1y73h876yxccgdlabvzil")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-iranges" ,r-iranges) + ("r-genomicranges" ,r-genomicranges) + ("r-rcolorbrewer" ,r-rcolorbrewer) + ("r-rtracklayer" ,r-rtracklayer) + ("r-genomeinfodb" ,r-genomeinfodb))) + (home-page "https://bioconductor.org/packages/IdeoViz/") + (synopsis "Plots data along a chromosomal ideogram") + (description "This package provides functions to plot data associated with +arbitrary genomic intervals along chromosomal ideogram.") + (license license:gpl2))) + ;; This is a CRAN package, but it depends on r-bsgenome-hsapiens-ucsc-hg19 ;; from Bioconductor. (define-public r-deconstructsigs @@ -811,6 +859,32 @@ performing parallel computations on multicore machines.") Disease Ontology.") (license license:artistic2.0))) +(define-public r-pasilla + (package + (name "r-pasilla") + (version "1.14.0") + (source (origin + (method url-fetch) + (uri (string-append + "http://bioconductor.org/packages/release/data/experiment" + "/src/contrib/pasilla_" version ".tar.gz")) + (sha256 + (base32 + "0h124i2fb2lbj2k48zzf1n7ldqa471bs26fbd9vw50299aqx28x0")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biocstyle" ,r-biocstyle) + ("r-dexseq" ,r-dexseq) + ("r-knitr" ,r-knitr) + ("r-rmarkdown" ,r-rmarkdown))) + (home-page "https://www.bioconductor.org/packages/pasilla/") + (synopsis "Data package with per-exon and per-gene read counts") + (description "This package provides per-exon and per-gene read counts +computed for selected genes from RNA-seq data that were presented in the +article 'Conservation of an RNA regulatory map between Drosophila and mammals' +by Brooks et al., Genome Research 2011.") + (license license:lgpl2.1+))) + (define-public r-pfam-db (package (name "r-pfam-db") @@ -995,6 +1069,63 @@ examples' of Affymetrix data, unlike the artificial examples included in the package @code{affy}.") (license license:gpl2+))) +(define-public r-coverageview + (package + (name "r-coverageview") + (version "1.24.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "CoverageView" version)) + (sha256 + (base32 + "0s47svs7xnr9jkylq0dxidqrigihdddiprcl0951vjr4w7kmb5nf")))) + (build-system r-build-system) + (propagated-inputs + `(("r-s4vectors" ,r-s4vectors) + ("r-iranges" ,r-iranges) + ("r-genomicranges" ,r-genomicranges) + ("r-genomicalignments" ,r-genomicalignments) + ("r-rtracklayer" ,r-rtracklayer) + ("r-rsamtools" ,r-rsamtools))) + (home-page "https://bioconductor.org/packages/CoverageView/") + (synopsis "Coverage visualization package for R") + (description "This package provides a framework for the visualization of +genome coverage profiles. It can be used for ChIP-seq experiments, but it can +be also used for genome-wide nucleosome positioning experiments or other +experiment types where it is important to have a framework in order to inspect +how the coverage distributed across the genome.") + (license license:artistic2.0))) + +(define-public r-cummerbund + (package + (name "r-cummerbund") + (version "2.28.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "cummeRbund" version)) + (sha256 + (base32 + "1fjc3bcclm4gsvw4nq6cv3a1kbrldvrxbkyfb9306708si1n4dwk")))) + (build-system r-build-system) + (propagated-inputs + `(("r-biobase" ,r-biobase) + ("r-biocgenerics" ,r-biocgenerics) + ("r-fastcluster", r-fastcluster) + ("r-ggplot2" ,r-ggplot2) + ("r-gviz" ,r-gviz) + ("r-plyr" ,r-plyr) + ("r-reshape2" ,r-reshape2) + ("r-rsqlite" ,r-rsqlite) + ("r-rtracklayer" ,r-rtracklayer) + ("r-s4vectors" ,r-s4vectors))) + (home-page "https://bioconductor.org/packages/cummeRbund/") + (synopsis "Analyze Cufflinks high-throughput sequencing data") + (description "This package allows for persistent storage, access, +exploration, and manipulation of Cufflinks high-throughput sequencing +data. In addition, provides numerous plotting functions for commonly +used visualizations.") + (license license:artistic2.0))) + (define-public r-curatedtcgadata (package (name "r-curatedtcgadata") @@ -1958,14 +2089,14 @@ experiments.") (define-public r-genomicinteractions (package (name "r-genomicinteractions") - (version "1.20.1") + (version "1.20.3") (source (origin (method url-fetch) (uri (bioconductor-uri "GenomicInteractions" version)) (sha256 (base32 - "140bp7c8p079xh5wwxmrq3a73pm6mdc9czq5w2gzjml7dgrca38a")))) + "01ps97cs29qvzy5piq2l2k0yyr56rmg5cycfiqhbbvqpjrfvy60g")))) (properties `((upstream-name . "GenomicInteractions"))) (build-system r-build-system) @@ -1986,6 +2117,8 @@ experiments.") ("r-rtracklayer" ,r-rtracklayer) ("r-s4vectors" ,r-s4vectors) ("r-stringr" ,r-stringr))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/ComputationalRegulatoryGenomicsICL/GenomicInteractions/") (synopsis "R package for handling genomic interaction data") (description @@ -2311,6 +2444,8 @@ possible, parallelization is achieved using the BiocParallel framework.") ("r-tidyr" ,r-tidyr) ("r-tidyselect" ,r-tidyselect) ("r-vim" ,r-vim))) + (native-inputs + `(("r-nbconvertr" ,r-nbconvertr))) ; for vignettes (home-page "https://bioconductor.org/packages/destiny/") (synopsis "Create and plot diffusion maps") (description "This package provides tools to create and plot diffusion @@ -2529,6 +2664,41 @@ and regression inferences from RNA-sequencing data.") gene and isoform level using RNA-seq data") (license license:artistic2.0))) +(define-public r-karyoploter + (package + (name "r-karyoploter") + (version "1.12.4") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "karyoploteR" version)) + (sha256 + (base32 + "03jmfgmw35hrgn3pc5lq6pblzhfx9fp4l6dx50rp303lr7kjxp9v")))) + (build-system r-build-system) + (propagated-inputs + `(("r-regioner" ,r-regioner) + ("r-genomicranges" ,r-genomicranges) + ("r-iranges" ,r-iranges) + ("r-rsamtools" ,r-rsamtools) + ("r-memoise" ,r-memoise) + ("r-rtracklayer" ,r-rtracklayer) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-s4vectors" ,r-s4vectors) + ("r-biovizbase" ,r-biovizbase) + ("r-digest" ,r-digest) + ("r-bezier" ,r-bezier) + ("r-bamsignals" ,r-bamsignals) + ("r-annotationdbi" ,r-annotationdbi) + ("r-variantannotation" ,r-variantannotation))) + (home-page "https://bioconductor.org/packages/karyoploteR/") + (synopsis "Plot customizable linear genomes displaying arbitrary data") + (description "This package creates karyotype plots of arbitrary genomes and +offers a complete set of functions to plot arbitrary data on them. It mimicks +many R base graphics functions coupling them with a coordinate change function +automatically mapping the chromosome and data coordinates into the plot +coordinates.") + (license license:artistic2.0))) + (define-public r-lpsymphony (package (name "r-lpsymphony") @@ -3330,14 +3500,14 @@ peak definition in combination with known profile characteristics.") (define-public r-varianttools (package (name "r-varianttools") - (version "1.28.0") + (version "1.28.1") (source (origin (method url-fetch) (uri (bioconductor-uri "VariantTools" version)) (sha256 (base32 - "0aafcprsqbn1xl8jqnxfl8r2d0lmzhssqpr26lam2cprh3yk0xiv")))) + "1x57shc3slcbnc807ra1nwnjr37sqjh04n2xfwd469m4hkjb0jzh")))) (properties `((upstream-name . "VariantTools"))) (build-system r-build-system) (propagated-inputs @@ -3499,8 +3669,8 @@ phenotype of interest.") (synopsis "Fast gene set enrichment analysis") (description "The package implements an algorithm for fast gene set enrichment -analysis. Using the fast algorithm allows to make more permutations and get -more fine grained p-values, which allows to use accurate stantard approaches +analysis. Using the fast algorithm makes more permutations and gets +more fine grained p-values, which allows using accurate standard approaches to multiple hypothesis correction.") (license license:expat))) @@ -3527,6 +3697,8 @@ to multiple hypothesis correction.") ("r-qvalue" ,r-qvalue) ("r-reshape2" ,r-reshape2) ("r-s4vectors" ,r-s4vectors))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://guangchuangyu.github.io/software/DOSE/") (synopsis "Disease ontology semantic and enrichment analysis") (description @@ -3781,14 +3953,14 @@ provides reporting features.") (define-public r-a4base (package (name "r-a4base") - (version "1.34.0") + (version "1.34.1") (source (origin (method url-fetch) (uri (bioconductor-uri "a4Base" version)) (sha256 (base32 - "0dgqyq4dnlcik5qqygnhxlhfr98sh6kmdcj2qllhrwyk0lmsfk01")))) + "1a0yk05ikk1hr1vpxynydrb5xb1hj4hdqlh9zd13n83ir89dss83")))) (properties `((upstream-name . "a4Base"))) (build-system r-build-system) (propagated-inputs @@ -3897,6 +4069,8 @@ further downstream analysis on its output.") `(("r-biocparallel" ,r-biocparallel) ("r-ellipse" ,r-ellipse) ("r-ggplot2" ,r-ggplot2))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://bioconductor.org/packages/bacon/") (synopsis "Controlling bias and inflation in association studies") (description @@ -3964,6 +4138,78 @@ database (e.g. JASPAR). It can also be used to visualize motifs, motif distributions, modules and filter motifs.") (license license:gpl2))) +(define-public r-motifdb + (package + (name "r-motifdb") + (version "1.28.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "MotifDb" version)) + (sha256 + (base32 "0m5apkjlvdq9yhjdyds3hivfnkbm6f059hy2bkjhalrlhd2si2jc")))) + (properties `((upstream-name . "MotifDb"))) + (build-system r-build-system) + (propagated-inputs + `(("r-biocgenerics" ,r-biocgenerics) + ("r-biostrings" ,r-biostrings) + ("r-iranges" ,r-iranges) + ("r-rtracklayer" ,r-rtracklayer) + ("r-s4vectors" ,r-s4vectors) + ("r-splitstackshape" ,r-splitstackshape))) + (home-page "https://www.bioconductor.org/packages/MotifDb/") + (synopsis "Annotated collection of protein-DNA binding sequence motifs") + (description "This package provides more than 2000 annotated position +frequency matrices from nine public sources, for multiple organisms.") + (license license:artistic2.0))) + +(define-public r-motifbreakr + (package + (name "r-motifbreakr") + (version "2.0.0") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "motifbreakR" version)) + (sha256 + (base32 "190z8gj393qdpq5wz7gph96k0l8c1j9wd0p0llscysvk5kr1hf9n")))) + (properties `((upstream-name . "motifbreakR"))) + (build-system r-build-system) + (propagated-inputs + `(("r-grimport" ,r-grimport) + ("r-stringr" ,r-stringr) + ("r-biocgenerics" ,r-biocgenerics) + ("r-s4vectors" ,r-s4vectors) + ("r-iranges" ,r-iranges) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicranges" ,r-genomicranges) + ("r-biostrings" ,r-biostrings) + ("r-bsgenome" ,r-bsgenome) + ("r-rtracklayer" ,r-rtracklayer) + ("r-variantannotation" ,r-variantannotation) + ("r-biocparallel" ,r-biocparallel) + ("r-motifstack" ,r-motifstack) + ("r-gviz" ,r-gviz) + ("r-matrixstats" ,r-matrixstats) + ("r-tfmpvalue" ,r-tfmpvalue) + ("r-motifdb" ,r-motifdb))) + (home-page "https://www.bioconductor.org/packages/motifbreakR/") + (synopsis "Predicting disruptiveness of single nucleotide polymorphisms") + (description "This package allows biologists to judge in the first place +whether the sequence surrounding the polymorphism is a good match, and in +the second place how much information is gained or lost in one allele of +the polymorphism relative to another. This package gives a choice of +algorithms for interrogation of genomes with motifs from public sources: +@enumerate +@item a weighted-sum probability matrix; +@item log-probabilities; +@item weighted by relative entropy. +@end enumerate + +This package can predict effects for novel or previously described variants in +public databases, making it suitable for tasks beyond the scope of its original +design. Lastly, it can be used to interrogate any genome curated within +Bioconductor.") + (license license:gpl2+))) + (define-public r-motifstack (package (name "r-motifstack") @@ -4030,14 +4276,14 @@ position-specific scores within R and Bioconductor.") (define-public r-atacseqqc (package (name "r-atacseqqc") - (version "1.10.3") + (version "1.10.4") (source (origin (method url-fetch) (uri (bioconductor-uri "ATACseqQC" version)) (sha256 (base32 - "18zf90iksglbs13cwr4jjwsv332a19lf4bpdmy69jz8bpwrklv22")))) + "1g07ni134cyl3jd9y19afip39kxddfgpm1jjm0rhrm7jgssp24in")))) (properties `((upstream-name . "ATACseqQC"))) (build-system r-build-system) (propagated-inputs @@ -4077,14 +4323,14 @@ footprints.") (define-public r-gofuncr (package (name "r-gofuncr") - (version "1.6.0") + (version "1.6.1") (source (origin (method url-fetch) (uri (bioconductor-uri "GOfuncR" version)) (sha256 (base32 - "0hmi13pz923fm95asys615rih63b1i2nvynfczr1zcsc9fzn4h35")))) + "1wk7ja6f5il8jx8v05ijzcs9pijp3b953h566ya66xp7dz5jg9rb")))) (properties `((upstream-name . "GOfuncR"))) (build-system r-build-system) (propagated-inputs @@ -4095,6 +4341,8 @@ footprints.") ("r-mapplots" ,r-mapplots) ("r-rcpp" ,r-rcpp) ("r-vioplot" ,r-vioplot))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://bioconductor.org/packages/GOfuncR/") (synopsis "Gene ontology enrichment using FUNC") (description @@ -4267,7 +4515,7 @@ investigation using RNA-seq data.") (home-page "https://bioconductor.org/packages/AUCell/") (synopsis "Analysis of gene set activity in single-cell RNA-seq data") (description - "AUCell allows to identify cells with active gene sets (e.g. signatures, + "AUCell identifies cells with active gene sets (e.g. signatures, gene modules, etc) in single-cell RNA-seq data. AUCell uses the @dfn{Area Under the Curve} (AUC) to calculate whether a critical subset of the input gene set is enriched within the expressed genes for each cell. The @@ -5829,14 +6077,14 @@ sequential way to mimic the manual gating strategy.") (define-public r-cytoml (package (name "r-cytoml") - (version "1.12.0") + (version "1.12.1") (source (origin (method url-fetch) (uri (bioconductor-uri "CytoML" version)) (sha256 (base32 - "0m8x18wkvis85cawv7j07pk59w76wnzy93ia99gd24j82z4h97p1")))) + "0wgi8rwb4spxzd5xvs5amfr5g82ny2nad57j3nmhnhnj1cpirjxz")))) (properties `((upstream-name . "CytoML"))) (build-system r-build-system) (inputs @@ -5866,6 +6114,8 @@ sequential way to mimic the manual gating strategy.") ("r-runit" ,r-runit) ("r-xml" ,r-xml) ("r-yaml" ,r-yaml))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/RGLab/CytoML") (synopsis "GatingML interface for cross platform cytometry data sharing") (description @@ -5906,14 +6156,14 @@ self-organizing map clustering and minimal spanning trees.") (define-public r-mixomics (package (name "r-mixomics") - (version "6.10.8") + (version "6.10.9") (source (origin (method url-fetch) (uri (bioconductor-uri "mixOmics" version)) (sha256 (base32 - "0307vhx9ck24rxqbvq15815ssxcc226sl2la060n204b51wi9jaa")))) + "0b457yg8mwqlrn5l344w8qcj8v2ghlj1wdx1ysxbncqvqx7nvgig")))) (properties `((upstream-name . "mixOmics"))) (build-system r-build-system) (propagated-inputs @@ -5930,6 +6180,8 @@ self-organizing map clustering and minimal spanning trees.") ("r-rcolorbrewer" ,r-rcolorbrewer) ("r-reshape2" ,r-reshape2) ("r-tidyr" ,r-tidyr))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "http://www.mixOmics.org") (synopsis "Multivariate methods for exploration of biological datasets") (description @@ -6354,6 +6606,44 @@ and parameters of which are trained on a set of aligned reads and a reference genome sequence.") (license license:lgpl3))) +(define-public r-snplocs-hsapiens-dbsnp144-grch37 + (package + (name "r-snplocs-hsapiens-dbsnp144-grch37") + (version "0.99.20") + (source (origin + (method url-fetch) + (uri (bioconductor-uri "SNPlocs.Hsapiens.dbSNP144.GRCh37" + version 'annotation)) + (sha256 + (base32 + "1z8kx43ki1jvj7ms7pcybakcdimfwr6zpjvspkjmma97bdz093iz")))) + (build-system r-build-system) + ;; As this package provides little more than a very large data file it + ;; doesn't make sense to build substitutes. + (arguments `(#:substitutable? #f)) + (propagated-inputs + `(("r-biocgenerics" ,r-biocgenerics) + ("r-s4vectors" ,r-s4vectors) + ("r-iranges" ,r-iranges) + ("r-genomeinfodb" ,r-genomeinfodb) + ("r-genomicranges" ,r-genomicranges) + ("r-bsgenome" ,r-bsgenome) + ("r-biostrings" ,r-biostrings))) + (home-page + "https://bioconductor.org/packages/SNPlocs.Hsapiens.dbSNP144.GRCh37/") + (synopsis "SNP locations for Homo sapiens (dbSNP Build 144)") + (description "This package provides SNP locations and alleles for Homo +sapiens extracted from NCBI dbSNP Build 144. The source data files used for +this package were created by NCBI on May 29-30, 2015, and contain SNPs mapped +to reference genome GRCh37.p13. Note that the GRCh37.p13 genome is a +patched version of GRCh37. However the patch doesn't alter chromosomes 1-22, +X, Y, MT. GRCh37 itself is the same as the hg19 genome from UCSC *except* for +the mitochondrion chromosome. Therefore, the SNPs in this package can be +injected in @code{BSgenome.Hsapiens.UCSC.hg19} and they will land at the +correct position but this injection will exclude chrM (i.e. nothing will be +injected in that sequence).") + (license license:artistic2.0))) + (define-public r-reqon (package (name "r-reqon") @@ -6418,7 +6708,7 @@ parametric mixture model. The protein binding sites (clusters) are then resolved at high resolution and cluster statistics are estimated using a rigorous Bayesian framework. Post-processing of the results, data export for UCSC genome browser visualization and motif search analysis are provided. In -addition, the package allows to integrate RNA-Seq data to estimate the False +addition, the package integrates RNA-Seq data to estimate the False Discovery Rate of cluster detection. Key functions support parallel multicore computing. While wavClusteR was designed for PAR-CLIP data analysis, it can be applied to the analysis of other NGS data obtained from experimental @@ -6725,6 +7015,8 @@ using whole genome sequencing data.") `(("r-data-table" ,r-data-table) ("r-ggplot2" ,r-ggplot2) ("r-metap" ,r-metap))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://cran.r-project.org/web/packages/ActivePathways/") (synopsis "Multivariate pathway enrichment analysis") (description @@ -7097,6 +7389,8 @@ structures.") ("r-rjson" ,r-rjson) ("r-rsqlite" ,r-rsqlite) ("r-xml" ,r-xml))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://github.com/TylerBackman/bioassayR") (synopsis "Cross-target analysis of small molecule bioactivity") (description @@ -7490,14 +7784,14 @@ accessing web references for elements/sets are also available in BiocSet.") (define-public r-biocworkflowtools (package (name "r-biocworkflowtools") - (version "1.12.0") + (version "1.12.1") (source (origin (method url-fetch) (uri (bioconductor-uri "BiocWorkflowTools" version)) (sha256 (base32 - "1v4bhnpdkmllm7aghms9b7369hkrgz7mn69wbrqg1x42pgkf30ad")))) + "0z28s572wg9qxv52dmixxz1xf1z3fyp2j7kzk0k32fp628918wr6")))) (properties `((upstream-name . "BiocWorkflowTools"))) (build-system r-build-system) @@ -7511,6 +7805,8 @@ accessing web references for elements/sets are also available in BiocSet.") ("r-rstudioapi" ,r-rstudioapi) ("r-stringr" ,r-stringr) ("r-usethis" ,r-usethis))) + (native-inputs + `(("r-knitr" ,r-knitr))) (home-page "https://bioconductor.org/packages/BiocWorkflowTools/") (synopsis "Tools to aid the development of Bioconductor Workflow packages") (description |