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392 Commits (0758a70cc008171f31c848128deca9803536fe60)

Author SHA1 Message Date
Ricardo Wurmus ca2b1dcfcd
gnu: r-xcms: Update to 3.6.2.
* gnu/packages/bioconductor.scm (r-xcms): Update to 3.6.2.
2019-10-21 18:23:07 +02:00
Ricardo Wurmus b9f39ac986
gnu: r-mlinterfaces: Update to 1.64.1.
* gnu/packages/bioconductor.scm (r-mlinterfaces): Update to 1.64.1.
2019-10-18 20:35:26 +02:00
zimoun 86fb2c63be
gnu: Add r-unifiedwmwqpcr.
* gnu/packages/bioconductor.scm (r-unifiedwmwqpcr): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-10-15 14:10:27 +02:00
zimoun 16e2e4f27b
gnu: Add r-htqpcr.
* gnu/packages/bioconductor.scm (r-htqpcr): New variable.

Signed-off-by: Ludovic Courtès <ludo@gnu.org>
2019-10-15 14:10:21 +02:00
Ricardo Wurmus 40be965e28
gnu: Add r-phastcons100way-ucsc-hg19.
* gnu/packages/bioconductor.scm (r-phastcons100way-ucsc-hg19): New variable.
2019-10-14 18:09:37 +02:00
Ricardo Wurmus 326746e14c
gnu: r-variancepartition: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.14.1.
[propagated-inputs]: Add r-biocparallel.
2019-10-06 23:08:47 +02:00
Ricardo Wurmus eb796f53ef
gnu: r-mixomics: Update to 6.8.5.
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.8.5.
2019-10-06 23:08:47 +02:00
Ricardo Wurmus 1c2e573302
gnu: r-regioner: Update to 1.16.5.
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.5.
2019-10-06 23:08:47 +02:00
Ricardo Wurmus d80a15696b
gnu: Add r-variancepartition.
* gnu/packages/bioconductor.scm (r-variancepartition): New variable.
2019-09-15 22:57:47 +02:00
Ricardo Wurmus 2a360cf6ac
gnu: Add r-wavetiling.
* gnu/packages/bioconductor.scm (r-wavetiling): New variable.
2019-09-15 22:54:21 +02:00
Ricardo Wurmus f5349b4d5a
gnu: Add r-genomegraphs.
* gnu/packages/bioconductor.scm (r-genomegraphs): New variable.
2019-09-15 22:51:52 +02:00
Ricardo Wurmus 4c63eeb8a4
gnu: Add r-oligo.
* gnu/packages/bioconductor.scm (r-oligo): New variable.
2019-09-15 22:50:31 +02:00
Ricardo Wurmus d6a5d9b24f
gnu: Add r-affxparser.
* gnu/packages/bioconductor.scm (r-affxparser): New variable.
2019-09-15 22:50:25 +02:00
Ricardo Wurmus df8576e5c9
gnu: Add r-variantfiltering.
* gnu/packages/bioconductor.scm (r-variantfiltering): New variable.
2019-09-15 22:41:03 +02:00
Ricardo Wurmus bb0024dc69
gnu: Add r-reqon.
* gnu/packages/bioconductor.scm (r-reqon): New variable.
2019-09-15 21:07:57 +02:00
Ricardo Wurmus e5dfcd8e26
gnu: Add r-seqbias.
* gnu/packages/bioconductor.scm (r-seqbias): New variable.
2019-09-15 21:07:56 +02:00
Ricardo Wurmus 12105c6c3a
gnu: Add r-affycoretools.
* gnu/packages/bioconductor.scm (r-affycoretools): New variable.
2019-09-15 20:58:26 +02:00
Ricardo Wurmus 01c7ba9982
gnu: Add r-oligoclasses.
* gnu/packages/bioconductor.scm (r-oligoclasses): New variable.
2019-09-15 20:58:26 +02:00
Ricardo Wurmus 15184fb386
gnu: Add r-reportingtools.
* gnu/packages/bioconductor.scm (r-reportingtools): New variable.
2019-09-15 20:58:25 +02:00
Ricardo Wurmus 83b4209122
gnu: Add r-pfam-db.
* gnu/packages/bioconductor.scm (r-pfam-db): New variable.
2019-09-15 20:57:26 +02:00
Ricardo Wurmus 4ca2d6c1a6
gnu: Add r-affycontam.
* gnu/packages/bioconductor.scm (r-affycontam): New variable.
2019-09-15 20:53:27 +02:00
Ricardo Wurmus 5094aa9472
gnu: Add r-affycompatible.
* gnu/packages/bioconductor.scm (r-affycompatible): New variable.
2019-09-15 20:53:21 +02:00
Ricardo Wurmus 5cf940de21
gnu: Add r-affycomp.
* gnu/packages/bioconductor.scm (r-affycomp): New variable.
2019-09-15 20:53:14 +02:00
Ricardo Wurmus 53b1e10f23
gnu: Add r-affydata.
* gnu/packages/bioconductor.scm (r-affydata): New variable.
2019-09-15 20:53:01 +02:00
Ricardo Wurmus 853211a51b
gnu: Add r-timeseriesexperiment.
* gnu/packages/bioconductor.scm (r-timeseriesexperiment): New variable.
2019-09-15 20:42:41 +02:00
Ricardo Wurmus 739b2d10f0
gnu: Add r-wavcluster.
* gnu/packages/bioconductor.scm (r-wavcluster): New variable.
2019-09-15 20:41:01 +02:00
Ricardo Wurmus 11f973e093
gnu: r-mixomics: Update to 6.8.4.
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.8.4.
2019-09-14 23:39:03 +02:00
Ricardo Wurmus f8fb5b75c9
gnu: r-gtrellis: Update to 1.16.1.
* gnu/packages/bioconductor.scm (r-gtrellis): Update to 1.16.1.
2019-09-14 23:38:58 +02:00
Ricardo Wurmus ec0270b1e9
gnu: r-regioner: Update to 1.16.4.
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.4.
2019-09-14 23:38:51 +02:00
Ricardo Wurmus 412153bbaf
gnu: r-bsgenome-celegans-ucsc-ce6: Permit substitution.
* gnu/packages/bioconductor.scm (r-bsgenome-celegans-ucsc-ce6)[arguments]:
Remove field.
2019-09-11 23:59:28 +02:00
Ricardo Wurmus 86ced7b271
gnu: r-bsgenome-celegans-ucsc-ce6: Use bioconductor-uri.
* gnu/packages/bioconductor.scm (r-bsgenome-celegans-ucsc-ce6)[source]: Use
BIOCONDUCTOR-URI.
2019-09-11 23:58:52 +02:00
Ricardo Wurmus f791b1eecc
gnu: r-rsubread: Update to 1.34.7.
* gnu/packages/bioconductor.scm (r-rsubread): Update to 1.34.7.
2019-09-08 00:30:33 +02:00
Ricardo Wurmus a39222d7e2
gnu: r-regioner: Update to 1.16.3.
* gnu/packages/bioconductor.scm (r-regioner): Update to 1.16.3.
2019-09-08 00:30:33 +02:00
Ricardo Wurmus 7cd446fd3f
gnu: Add r-txdb-celegans-ucsc-ce6-ensgene.
* gnu/packages/bioconductor.scm (r-txdb-celegans-ucsc-ce6-ensgene): New
variable.
2019-09-06 15:00:49 +02:00
Ricardo Wurmus 6b5f59c7a6
gnu: Add r-bigmelon.
* gnu/packages/bioconductor.scm (r-bigmelon): New variable.
2019-09-05 11:46:29 +02:00
Ricardo Wurmus 7d2cb646f7
gnu: Add r-gdsfmt.
* gnu/packages/bioconductor.scm (r-gdsfmt): New variable.
2019-09-05 11:46:29 +02:00
Ricardo Wurmus 38babeaaa4
gnu: Add r-watermelon.
* gnu/packages/bioconductor.scm (r-watermelon): New variable.
2019-09-05 11:46:29 +02:00
Ricardo Wurmus 46721deaf8
gnu: Add r-illuminahumanmethylation450kanno-ilmn12-hg19.
* gnu/packages/bioconductor.scm
(r-illuminahumanmethylation450kanno-ilmn12-hg19): New variable.
2019-09-05 11:46:29 +02:00
Ricardo Wurmus db316d7376
gnu: Add r-roc.
* gnu/packages/bioconductor.scm (r-roc): New variable.
2019-09-05 11:46:29 +02:00
Ricardo Wurmus b58b4410e2
gnu: r-mixomics: Update to 6.8.2.
* gnu/packages/bioconductor.scm (r-mixomics): Update to 6.8.2.
2019-09-02 14:40:56 +02:00
Ricardo Wurmus 9b275285e9
gnu: r-fgsea: Update to 1.10.1.
* gnu/packages/bioconductor.scm (r-fgsea): Update to 1.10.1.
2019-09-02 14:40:56 +02:00
Ricardo Wurmus 8324e64cd5
gnu: Add r-ensdb-hsapiens-v75.
* gnu/packages/bioconductor.scm (r-ensdb-hsapiens-v75): New variable.
2019-09-02 14:40:54 +02:00
Robert Vollmert dddbc90c64
gnu: Move non-compilers out of haskell.scm.
* gnu/packages/haskell.scm (ghc-abstract-deque, ghc-abstract-par,
ghc-adjunctions, ghc-aeson-compat, ghc-alex, ghc-alsa-core,
ghc-annotated-wl-pprint, ghc-ansi-terminal, ghc-ansi-wl-pprint,
ghc-appar, ghc-async, ghc-atomic-write, ghc-attoparsec,
ghc-attoparsec-bootstrap, ghc-attoparsec-iso8601, ghc-auto-update,
ghc-aws, ghc-base16-bytestring, ghc-base64-bytestring, ghc-base-compat,
ghc-basement, ghc-base-orphans, ghc-base-prelude,
ghc-base-unicode-symbols, ghc-bifunctors, ghc-bindings-dsl,
ghc-blaze-builder, ghc-blaze-markup, ghc-bloomfilter, ghc-boxes,
ghc-byteable, ghc-byteorder, ghc-bytes, ghc-bytestring-builder,
ghc-bytestring-handle, ghc-bytestring-lexing, ghc-bzlib-conduit,
ghc-c2hs, ghc-cairo, ghc-call-stack, ghc-call-stack-boot,
ghc-case-insensitive, ghc-cereal, ghc-cereal-conduit, ghc-cgi,
ghc-charset, ghc-chart, ghc-chart-cairo, ghc-chasingbottoms,
ghc-cheapskate, ghc-chell, ghc-chell-quickcheck, ghc-chunked-data,
ghc-clock, ghc-clock-bootstrap, ghc-cmark, ghc-cmark-gfm, ghc-cmdargs,
ghc-code-page, ghc-colour, ghc-comonad, ghc-concatenative,
ghc-concurrent-output, ghc-conduit, ghc-conduit-algorithms,
ghc-conduit-combinators, ghc-conduit-extra, ghc-configurator,
ghc-connection, ghc-constraints, ghc-contravariant,
ghc-contravariant-extras, ghc-convertible, ghc-data-accessor,
ghc-data-accessor-transformers, ghc-data-default,
ghc-data-default-class, ghc-data-default-instances-base,
ghc-data-default-instances-containers, ghc-data-default-instances-dlist,
ghc-data-default-instances-old-locale, ghc-data-hash, ghc-data-ordlist,
ghc-deepseq-generics, ghc-descriptive, ghc-diff, ghc-disk-free-space,
ghc-distributive, ghc-dlist, ghc-doctemplates, ghc-doctest,
ghc-double-conversion, ghc-easy-file, ghc-easyplot, ghc-echo,
ghc-edisonapi, ghc-edisoncore, ghc-edit-distance, ghc-either,
ghc-email-validate, ghc-enclosed-exceptions, ghc-equivalence, ghc-erf,
ghc-errorcall-eq-instance, ghc-errors, ghc-esqueleto, ghc-exactprint,
ghc-exceptions, ghc-executable-path, ghc-extensible-exceptions,
ghc-extra, ghc-fail, ghc-fast-logger, ghc-feed, ghc-fgl,
ghc-fgl-arbitrary, ghc-file-embed, ghc-filemanip, ghc-findbin,
ghc-fingertree, ghc-fixed, ghc-foldl, ghc-foundation, ghc-free,
ghc-fsnotify, ghc-generic-deriving, ghc-generics-sop,
ghc-geniplate-mirror, ghc-genvalidity, ghc-genvalidity-property,
ghc-gitrev, ghc-glob, ghc-gluraw, ghc-glut, ghc-gnuplot, ghc-graphviz,
ghc-gtk2hs-buildtools, ghc-hackage-security, ghc-haddock,
ghc-haddock-api, ghc-haddock-library, ghc-half, ghc-happy, ghc-hashable,
ghc-hashable-bootstrap, ghc-hashable-time, ghc-hashtables,
ghc-haskell-lexer, ghc-haskell-src, ghc-haskell-src-exts,
ghc-haskell-src-exts-util, ghc-haskell-src-meta, ghc-hasktags, ghc-hex,
ghc-highlighting-kate, ghc-hindent, ghc-hinotify, ghc-hmatrix,
ghc-hmatrix-gsl, ghc-hmatrix-gsl-stats, ghc-hmatrix-special,
ghc-hostname, ghc-hourglass, ghc-hpack, ghc-hs-bibutils, ghc-hslogger,
ghc-hslua, ghc-hslua-module-text, ghc-http-api-data, ghc-ieee754,
ghc-ifelse, ghc-indents, ghc-inline-c, ghc-inline-c-cpp,
ghc-integer-logarithms, ghc-integer-logarithms-bootstrap,
ghc-interpolate, ghc-intervalmap, ghc-invariant, ghc-iproute, ghc-iwlib,
ghc-json, ghc-juicypixels, ghc-kan-extensions, ghc-language-c,
ghc-language-haskell-extract, ghc-lens, ghc-libffi, ghc-libmpd,
ghc-libxml, ghc-lifted-async, ghc-lifted-base, ghc-linear,
ghc-logging-facade, ghc-logict, ghc-lzma, ghc-lzma-conduit,
ghc-markdown-unlit, ghc-math-functions, ghc-megaparsec, ghc-memory,
ghc-memotrie, ghc-microlens, ghc-microlens-ghc, ghc-microlens-mtl,
ghc-microlens-platform, ghc-microlens-th, ghc-missingh, ghc-mmap,
ghc-mmorph, ghc-mockery, ghc-monad-control, ghc-monad-logger,
ghc-monad-loops, ghc-monad-par, ghc-monad-par-extras, ghc-monadplus,
ghc-monadrandom, ghc-monads-tf, ghc-mono-traversable, ghc-murmur-hash,
ghc-mwc-random, ghc-nats, ghc-nats-bootstrap, ghc-network,
ghc-network-info, ghc-network-uri, ghc-newtype-generics, ghc-objectname,
ghc-old-locale, ghc-old-time, ghc-opengl, ghc-openglraw,
ghc-operational, ghc-options, ghc-optparse-applicative, ghc-pandoc,
ghc-pandoc-citeproc, ghc-pandoc-types, ghc-parallel, ghc-parsec-numbers,
ghc-parser-combinators, ghc-parsers, ghc-path, ghc-path-io, ghc-paths,
ghc-patience, ghc-pcre-light, ghc-persistent, ghc-persistent-sqlite,
ghc-persistent-template, ghc-polyparse, ghc-pqueue, ghc-prelude-extras,
ghc-pretty-hex, ghc-pretty-show, ghc-primitive, ghc-profunctors,
ghc-psqueues, ghc-random, ghc-raw-strings-qq, ghc-rebase, ghc-reducers,
ghc-refact, ghc-reflection, ghc-regex, ghc-regex-applicative,
ghc-regex-base, ghc-regex-compat, ghc-regex-compat-tdfa,
ghc-regex-pcre-builtin, ghc-regex-posix, ghc-regex-tdfa,
ghc-regex-tdfa-text, ghc-rerebase, ghc-resolv, ghc-resource-pool,
ghc-resourcet, ghc-rfc5051, ghc-rio, ghc-safe, ghc-safe-exceptions,
ghc-safeio, ghc-safesemaphore, ghc-sandi, ghc-scientific,
ghc-scientific-bootstrap, ghc-sdl, ghc-sdl-image, ghc-sdl-mixer,
ghc-securemem, ghc-semigroupoids, ghc-semigroups,
ghc-semigroups-bootstrap, ghc-setenv, ghc-setlocale, ghc-shakespeare,
ghc-shelly, ghc-silently, ghc-simple-reflect, ghc-simple-sendfile,
ghc-skylighting-core, ghc-skylighting, ghc-smallcheck, ghc-socks,
ghc-split, ghc-statevar, ghc-statistics, ghc-stm-chans, ghc-stm-conduit,
ghc-stmonadtrans, ghc-storable-complex, ghc-streaming-commons,
ghc-strict, ghc-stringbuilder, ghc-string-qq, ghc-stringsearch,
ghc-stylish-haskell, ghc-syb, ghc-system-fileio, ghc-system-filepath,
ghc-tagged, ghc-tar, ghc-temporary, ghc-temporary-rc, ghc-terminal-size,
ghc-texmath, ghc-text-binary, ghc-tf-random, ghc-th-abstraction,
ghc-th-expand-syns, ghc-th-lift, ghc-th-lift-instances, ghc-th-orphans,
ghc-th-reify-many, ghc-time-locale-compat, ghc-tldr,
ghc-transformers-base, ghc-transformers-compat, ghc-tree-diff,
ghc-trifecta, ghc-tuple-th, ghc-typed-process, ghc-unbounded-delays,
ghc-unexceptionalio, ghc-union-find, ghc-uniplate, ghc-unix-compat,
ghc-unix-time, ghc-unliftio, ghc-unliftio-core,
ghc-unordered-containers, ghc-unordered-containers-bootstrap,
ghc-uri-bytestring, ghc-utf8-string, ghc-utility-ht, ghc-uuid,
ghc-uuid-types, ghc-validation, ghc-validity, ghc-vault, ghc-vector,
ghc-vector-algorithms, ghc-vector-binary-instances, ghc-vector-builder,
ghc-vector-th-unbox, ghc-void, ghc-wave, ghc-wcwidth,
ghc-wcwidth-bootstrap, ghc-weigh, ghc-wl-pprint,
ghc-wl-pprint-annotated, ghc-wl-pprint-text, ghc-word8, ghc-x11,
ghc-x11-xft, ghc-xdg-basedir, ghc-xml, ghc-xml-conduit, ghc-xml-types,
ghc-yaml, ghc-zip-archive, ghc-zlib): Move variables from here...
* gnu/packages/haskell-xyz.scm: ...to here.
* gnu/packages/agda.scm,
gnu/packages/bioconductor.scm,
gnu/packages/bioinformatics.scm,
gnu/packages/cran.scm,
gnu/packages/emacs-xyz.scm,
gnu/packages/games.scm,
gnu/packages/graphics.scm,
gnu/packages/haskell-apps.scm,
gnu/packages/haskell-check.scm,
gnu/packages/idris.scm,
gnu/packages/statistics.scm,
gnu/packages/wm.scm: Update module references.

Co-authored-by: Timothy Sample <samplet@ngyro.com>
2019-08-31 09:25:49 -04:00
Ricardo Wurmus d85c0f9842
gnu: Add r-genie3.
* gnu/packages/bioconductor.scm (r-genie3): New variable.
2019-08-30 22:42:50 +02:00
Ricardo Wurmus a9815a6cf2
gnu: Add r-cistopic.
* gnu/packages/bioconductor.scm (r-cistopic): New variable.
2019-08-15 17:44:25 +02:00
Ricardo Wurmus bb88417fb7
gnu: Add r-rcistarget.
* gnu/packages/bioconductor.scm (r-rcistarget): New variable.
2019-08-15 17:44:25 +02:00
Ricardo Wurmus b120789193
gnu: r-rsubread: Update to 1.34.6.
* gnu/packages/bioconductor.scm (r-rsubread): Update to 1.34.6.
2019-08-06 15:49:00 +02:00
Ricardo Wurmus d6158ecb3b
gnu: r-abaenrichment: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-abaenrichment): Update to 1.14.1.
2019-08-06 15:49:00 +02:00
Ricardo Wurmus fbe5a0872f
gnu: r-atacseqqc: Update to 1.8.5.
* gnu/packages/bioconductor.scm (r-atacseqqc): Update to 1.8.5.
2019-08-06 15:49:00 +02:00
Ricardo Wurmus fcbd8960c2
gnu: r-genomicinteractions: Update to 1.18.1.
* gnu/packages/bioconductor.scm (r-genomicinteractions): Update to 1.18.1.
2019-08-06 15:49:00 +02:00