diff options
Diffstat (limited to 'gnu/packages/bioconductor.scm')
| -rw-r--r-- | gnu/packages/bioconductor.scm | 48 |
1 files changed, 25 insertions, 23 deletions
diff --git a/gnu/packages/bioconductor.scm b/gnu/packages/bioconductor.scm index 4dc7000250..0aa1635e6a 100644 --- a/gnu/packages/bioconductor.scm +++ b/gnu/packages/bioconductor.scm @@ -4076,13 +4076,13 @@ model as latent variables.") (define-public r-asics (package (name "r-asics") - (version "2.18.0") + (version "2.18.1") (source (origin (method url-fetch) (uri (bioconductor-uri "ASICS" version)) (sha256 (base32 - "10wlmnlpn6ji256fp81rhsm2rsbsqsbvbjqqpw9vib11cwpam9wd")))) + "0sii6sg20l6mfm8cj8zas2dm3wq6fwcwanav6fl7wkv8msk02sxb")))) (properties `((upstream-name . "ASICS"))) (build-system r-build-system) (propagated-inputs @@ -4838,13 +4838,13 @@ enrichment in single cell data.") (define-public r-coregx (package (name "r-coregx") - (version "2.6.0") + (version "2.6.1") (source (origin (method url-fetch) (uri (bioconductor-uri "CoreGx" version)) (sha256 - (base32 "0ffbi5afw759mi5r657h67hdh9yr5jrzvl3aigp960jzb5542105")))) + (base32 "16i8xq98vg8xgscwj0w9bsq68vjmhsvwwdw66kcphvf3jjfmn1rv")))) (properties `((upstream-name . "CoreGx"))) (build-system r-build-system) (propagated-inputs @@ -6900,13 +6900,13 @@ objects.") (define-public r-biostrings (package (name "r-biostrings") - (version "2.70.2") + (version "2.70.3") (source (origin (method url-fetch) (uri (bioconductor-uri "Biostrings" version)) (sha256 (base32 - "0lmaknlw3mk946h26davr9cz5xpzjp0c8qjxbr7drj8b2cjfm66a")))) + "1704fn4dlswy5silmw2ri4yjbibqv249cnrb5mdgiwjh7l51w725")))) (properties `((upstream-name . "Biostrings"))) (build-system r-build-system) @@ -7332,14 +7332,14 @@ distribution.") (define-public r-deseq2 (package (name "r-deseq2") - (version "1.42.0") + (version "1.42.1") (source (origin (method url-fetch) (uri (bioconductor-uri "DESeq2" version)) (sha256 (base32 - "1mz7v0vcl741zjvj63mk48hhbq6sk2fl2dwn9y1a6hr8fb79vy1a")))) + "1s104b9k45b7kjrk56yw2yi4gi716nkcwnpqj4vj9w17xsb5m6zp")))) (properties `((upstream-name . "DESeq2"))) (build-system r-build-system) (propagated-inputs @@ -7882,18 +7882,18 @@ genomic intervals. In addition, it can use BAM or BigWig files as input.") (define-public r-genomeinfodb (package (name "r-genomeinfodb") - (version "1.38.6") + (version "1.38.7") (source (origin (method url-fetch) (uri (bioconductor-uri "GenomeInfoDb" version)) (sha256 (base32 - "0z8wkv5jhx8wr6idnakm26lhhk4ssj6ivbb7hfbzhkajcbnnf7mq")))) + "0xx6ybvnbpxj59g1fiij8bicniamhhd7d7fcw8c7py15y3h2mlc1")))) (properties `((upstream-name . "GenomeInfoDb"))) (build-system r-build-system) (propagated-inputs - (list r-biocgenerics r-genomeinfodbdata r-iranges r-rcurl r-s4vectors)) + (list r-biocgenerics r-genomeinfodbdata r-iranges r-s4vectors)) (native-inputs (list r-knitr)) (home-page "https://bioconductor.org/packages/GenomeInfoDb") @@ -7973,13 +7973,13 @@ Commons RESTful service.") (define-public r-genomicfeatures (package (name "r-genomicfeatures") - (version "1.54.3") + (version "1.54.4") (source (origin (method url-fetch) (uri (bioconductor-uri "GenomicFeatures" version)) (sha256 (base32 - "1b78fss1nfyph6b7pv3ss6iv6r2qgrmx4klxvq8waz2nxvikxdl5")))) + "0g2fv4r82ql7p2allapmgs2bj4ad70c8030vzkml7ghrxsgrryp3")))) (properties `((upstream-name . "GenomicFeatures"))) (build-system r-build-system) @@ -7993,8 +7993,9 @@ Commons RESTful service.") r-dbi r-genomeinfodb r-genomicranges + r-httr r-iranges - r-rcurl + r-rjson r-rsqlite r-rtracklayer r-s4vectors @@ -8220,13 +8221,13 @@ Enrichment Analysis} (GSEA).") (define-public r-gsva (package (name "r-gsva") - (version "1.50.0") + (version "1.50.1") (source (origin (method url-fetch) (uri (bioconductor-uri "GSVA" version)) (sha256 (base32 - "01w5j7fmi3hsfd282kcn4v41mi58z2yfhapff2zgf9swdfps4m6z")))) + "0ld0bbl6ar3yhi6ncg9d8q60hg4m4v5kphl044fw63l19ixln7cf")))) (properties `((upstream-name . "GSVA"))) (build-system r-build-system) (propagated-inputs (list r-biobase @@ -11724,24 +11725,24 @@ Biology at (define-public r-stringdb (package (name "r-stringdb") - (version "2.14.0") + (version "2.14.3") (source (origin (method url-fetch) (uri (bioconductor-uri "STRINGdb" version)) (sha256 - (base32 "1ffn73sx0qbzbh8cjil9r159g0fjnvi6y8rlbg6nf7p3zx3aya54")))) + (base32 "06bckzczg2rspazcbpp3v265c1dkr9l1vpdhkc7gdn2dk960jlkh")))) (properties `((upstream-name . "STRINGdb"))) (build-system r-build-system) (propagated-inputs (list r-gplots r-hash + r-httr r-igraph r-plotrix r-plyr r-png r-rcolorbrewer - r-rcurl r-sqldf)) (home-page "https://git.bioconductor.org/packages/STRINGdb") (synopsis "Search tool for the retrieval of interacting proteins database") @@ -12261,16 +12262,17 @@ describing each of the graphs.") (define-public r-zlibbioc (package (name "r-zlibbioc") - (version "1.48.0") + (version "1.48.2") (source (origin (method url-fetch) (uri (bioconductor-uri "zlibbioc" version)) (sha256 (base32 - "043xwgw3yclxnxlfl7fdwf7qf7fajzvqdv34qxnngxj9wpgha3gv")))) + "078v1iywzc0ng27r0wjchvkh4znzydq1swlalqb95xkmn72vrq8d")))) (properties `((upstream-name . "zlibbioc"))) (build-system r-build-system) + (native-inputs (list r-knitr)) (home-page "https://bioconductor.org/packages/zlibbioc") (synopsis "Provider for zlib-1.2.5 to R packages") (description "This package uses the source code of zlib-1.2.5 to create @@ -15912,14 +15914,14 @@ attempts to assess their statistical significance.") (define-public r-clusterprofiler (package (name "r-clusterprofiler") - (version "4.10.0") + (version "4.10.1") (source (origin (method url-fetch) (uri (bioconductor-uri "clusterProfiler" version)) (sha256 (base32 - "1vlrybyczfci5qnw50k0y2j2853r2p1ff5bpj35rdca4ja0iqh2q")))) + "1jwi9029dy7ga4hv75grib7wdaghslwh4qk5awhgw3192a0qcixf")))) (properties `((upstream-name . "clusterProfiler"))) (build-system r-build-system) |