Commit Graph

3534 Commits

Author SHA1 Message Date
Simon Tournier
14038b4df0
gnu: r-dnacopy: Update to 1.72.3.
* gnu/packages/bioconductor.scm (r-dnacopy): Update to 1.72.3.
2023-02-24 08:02:21 +01:00
Simon Tournier
2b6c03a34e
gnu: r-interactionset: Update to 1.26.1.
* gnu/packages/bioconductor.scm (r-interactionset): Update to 1.26.1.
2023-02-24 08:02:21 +01:00
Simon Tournier
9202c56e84
gnu: r-oligo: Update to 1.62.2.
* gnu/packages/bioconductor.scm (r-oligo): Update to 1.62.2.
2023-02-24 08:02:21 +01:00
Simon Tournier
144c07fd4a
gnu: r-variantannotation: Update to 1.44.1.
* gnu/packages/bioconductor.scm (r-variantannotation): Update to 1.44.1.
2023-02-24 08:02:21 +01:00
Simon Tournier
962278a621
gnu: r-stringdb: Update to 2.10.1.
* gnu/packages/bioconductor.scm (r-stringdb): Update to 2.10.1.
2023-02-24 08:02:21 +01:00
Simon Tournier
9682fd19bf
gnu: r-limma: Update to 3.54.1.
* gnu/packages/bioconductor.scm (r-limma): Update to 3.54.1.
2023-02-24 08:02:21 +01:00
Simon Tournier
8fb4758b12
gnu: r-impute: Update to 1.72.3.
* gnu/packages/bioconductor.scm (r-impute): Update to 1.72.3.
2023-02-24 08:01:02 +01:00
Simon Tournier
705d024b14
gnu: r-genomicfeatures: Update to 1.50.4.
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.50.4.
2023-02-24 08:01:02 +01:00
Simon Tournier
5b0984393c
gnu: r-genomeinfodb: Update to 1.34.9.
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.34.9.
2023-02-24 08:01:02 +01:00
Simon Tournier
4fd6ea684a
gnu: r-genefilter: Update to 1.80.3.
* gnu/packages/bioconductor.scm (r-genefilter): Update to 1.80.3.
2023-02-24 08:01:02 +01:00
Simon Tournier
b38475bef4
gnu: r-edger: Update to 3.40.2.
* gnu/packages/bioconductor.scm (r-edger): Update to 3.40.2.
2023-02-24 08:01:02 +01:00
Simon Tournier
3ffaed5044
gnu: r-deseq2: Update to 1.38.3.
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.38.3.
2023-02-24 08:01:02 +01:00
Simon Tournier
d2598f57fb
gnu: r-bsgenome: Update to 1.66.3.
* gnu/packages/bioconductor.scm (r-bsgenome): Update to 1.66.3.
2023-02-24 08:01:02 +01:00
Simon Tournier
3f2a917993
gnu: r-annotationforge: Update to 1.40.1.
* gnu/packages/bioconductor.scm (r-annotationforge): Update to 1.40.1.
2023-02-24 08:01:02 +01:00
Simon Tournier
dd2c4cafdf
gnu: r-cytolib: Update to 2.10.1.
* gnu/packages/bioconductor.scm (r-cytolib): Update to 2.10.1.
[propagated-inputs]: Remove r-rcpp, r-rcpparmadillo and r-rcppparallel.
2023-02-24 08:00:58 +01:00
Tobias Geerinckx-Rice
1e6ddceb83
gnu: Use HTTPS package home pages wherever possible.
* gnu/packages/accessibility.scm (florence)[home-page]: Use HTTPS.
* gnu/packages/admin.scm (netcat, nmon)[home-page]: Likewise.
* gnu/packages/algebra.scm (mpfrcx, cm, flint, fftw, r-dtt)[home-page]:
Likewise.
* gnu/packages/apr.scm (apr, apr-util)[home-page]: Likewise.
* gnu/packages/aspell.scm (aspell-dict-it)[home-page]: Likewise.
* gnu/packages/astronomy.scm (casacore, sextractor, libnova)
(xplanet)[home-page]: Likewise.
* gnu/packages/audio.scm (libtimidity, alsa-modular-synth, azr3, tao)
(freepats, rakarrack, liblo, libshout-idjc, timidity++, libsbsms)
(libmodplug, libxmp, xmp, sox, drc, gsm, gnaural)
(streamripper)[home-page]: Likewise.
* gnu/packages/authentication.scm (pamtester)[home-page]: Likewise.
* gnu/packages/backup.scm (grsync)[home-page]: Likewise.
* gnu/packages/bioconductor.scm (r-nmf, r-edger, r-limma)
(r-plgem)[home-page]: Likewise.
* gnu/packages/bioinformatics.scm (python-biom-format, bowtie, bowtie1)
(bwa, crossmap, java-htsjdk, java-htsjdk-latest, java-picard)
(java-picard-2.10.3, kaiju, proteinortho, rsem, rseqc, seek, samtools)
(snap-aligner, subread, stringtie, r-centipede, prinseq, emboss, phylip)
(libsbml)[home-page]: Likewise.
* gnu/packages/build-tools.scm (tup)[home-page]: Likewise.
* gnu/packages/cdrom.scm (libcddb, cdrdao, cdrtools)
(cd-discid)[home-page]: Likewise.
* gnu/packages/check.scm (cunit, python-nose)
(python-pyhamcrest)[home-page]: Likewise.
* gnu/packages/chemistry.scm (gromacs)[home-page]: Likewise.
* gnu/packages/chez.scm (chez-fmt)[home-page]: Likewise.
* gnu/packages/code.scm (lcov, uncrustify, cscope)[home-page]: Likewise.
* gnu/packages/compression.scm (p7zip)[home-page]: Likewise.
* gnu/packages/cran.scm (r-emdist, r-proj4, r-zoo, r-ggalluvial)
(r-orgmassspecr, r-polychrome, r-partykit, r-rcpp, r-ff, r-emdbook)
(r-fitdistrplus, r-linprog, r-geometry, r-dtw, r-fst, r-rjags)
(r-intergraph, r-qualv, r-labelled, r-survey, r-coin, r-fmsb, r-tm)
(r-corpcor, r-rmpfr, r-spatialextremes, r-longitudinal, r-genenet)
(r-bayesm, r-seqinr, r-mpm, r-text2vec, r-rgdal, r-seewave, r-hdrcde)
(r-shapes, r-anytime, r-stm, r-d3network, r-tam, r-directlabels)
(r-spatstat-utils, r-spatstat-sparse, r-spatstat-data, r-spatstat-geom)
(r-spatstat-core, r-spatstat-linnet, r-spatstat-random, r-spatstat)
(r-rcpptoml, r-mlecens, r-seurat, r-mlearning, r-zooimage)[home-page]:
Likewise.
* gnu/packages/crates-io.scm (rust-nickel-0.11, rust-thrift-0.13)
(rust-trust-dns-https-0.20, rust-trust-dns-native-tls-0.20)
(rust-trust-dns-openssl-0.20, rust-trust-dns-proto-0.20)
(rust-trust-dns-resolver-0.20, rust-trust-dns-rustls-0.20)
(rust-uint-0.9, rust-yaml-rust-0.4)[home-page]: Likewise.
* gnu/packages/crypto.scm (libdecaf, ccrypt)[home-page]: Likewise.
* gnu/packages/curl.scm (curlpp)[home-page]: Likewise.
* gnu/packages/databases.scm (python-pylibmc, unixodbc, wiredtiger)
(libpqxx, mdbtools, virtuoso-ose, libdbi, libdbi-drivers)
(soci)[home-page]: Likewise.
* gnu/packages/debian.scm (apt-mirror)[home-page]: Likewise.
* gnu/packages/debug.scm (remake)[home-page]: Likewise.
* gnu/packages/disk.scm (sdparm, idle3-tools, duc)[home-page]: Likewise.
* gnu/packages/django.scm (python-django-haystack)[home-page]: Likewise.
* gnu/packages/djvu.scm (djvulibre, djview)[home-page]: Likewise.
* gnu/packages/dns.scm (dnsmasq)[home-page]: Likewise.
* gnu/packages/docbook.scm (dblatex, docbook2x)[home-page]: Likewise.
* gnu/packages/documentation.scm (scrollkeeper)[home-page]: Likewise.
* gnu/packages/ebook.scm (liblinebreak)[home-page]: Likewise.
* gnu/packages/electronics.scm (xoscope)[home-page]: Likewise.
* gnu/packages/emacs-xyz.scm (emacs-bbdb, emacs-caps-lock, emacs-djvu)
(emacs-pabbrev, emacs-twittering-mode, emacs-filladapt, emacs-rudel)
(emacs-stream, emacspeak, emacs-cc-mode, emacs-eldoc, emacs-jsonrpc)
(emacs-gtk-look, emacs-xclip, emacs-slime-volleyball, emacs-minimap)
(emacs-auto-dictionary-mode, emacs-persist, emacs-shell-command+)
(emacs-map, emacs-xref, emacs-dictionary)[home-page]: Likewise.
* gnu/packages/embedded.scm (sdcc)[home-page]: Likewise.
* gnu/packages/engineering.scm (asco, libngspice, libspnav)
(openctm)[home-page]: Likewise.
* gnu/packages/erlang.scm (erlang-erlware-commons)[home-page]: Likewise.
* gnu/packages/file-systems.scm (jfsutils, curlftpfs)[home-page]:
Likewise.
* gnu/packages/finance.scm (gbonds)[home-page]: Likewise.
* gnu/packages/flashing-tools.scm (dfu-util, srecord)[home-page]:
Likewise.
* gnu/packages/fltk.scm (ntk)[home-page]: Likewise.
* gnu/packages/fonts.scm (font-terminus, font-tex-gyre)
(font-comic-neue)[home-page]: Likewise.
* gnu/packages/fontutils.scm (ttf2pt1, potrace, libspiro)[home-page]:
Likewise.
* gnu/packages/fpga.scm (icestorm, gtkwave, gtkwave)
(python-myhdl)[home-page]: Likewise.
* gnu/packages/freedesktop.scm (libatasmart)[home-page]: Likewise.
* gnu/packages/ftp.scm (weex)[home-page]: Likewise.
* gnu/packages/game-development.scm (dds, python-tmx, sfxr, quesoglc)
(eureka, plib)[home-page]: Likewise.
* gnu/packages/games.scm (abe, alex4, armagetronad, barony)
(foobillard++, golly, ltris, pipewalker, prboom-plus, trigger-rally)
(cmatrix, pinball, pioneers, tennix, chromium-bsu, freeciv, kiki)
(quakespasm, frotz, frotz-dumb-terminal, frotz-sdl, btanks)
(flare-engine, chessx, barrage, cgoban, passage)[home-page]: Likewise.
* gnu/packages/geo.scm (python-geopandas, saga)[home-page]: Likewise.
* gnu/packages/gl.scm (freeglut, gl2ps)[home-page]: Likewise.
* gnu/packages/gnome.scm (cogl, clutter-gtk, clutter-gst, bluefish)
(workrave)[home-page]: Likewise.
* gnu/packages/gnustep.scm (wmnd, wmfire, wmfire)[home-page]: Likewise.
* gnu/packages/graph.scm (mscgen)[home-page]: Likewise.
* gnu/packages/graphics.scm (assimp, alembic, ctl, agg)
(opencsg)[home-page]: Likewise.
* gnu/packages/graphviz.scm (gts)[home-page]: Likewise.
* gnu/packages/gtk.scm (gtkspell3)[home-page]: Likewise.
* gnu/packages/guile-xyz.scm (guile-irregex)[home-page]: Likewise.
* gnu/packages/haskell-apps.scm (cpphs)[home-page]: Likewise.
* gnu/packages/haskell-check.scm (ghc-hunit)[home-page]: Likewise.
* gnu/packages/haskell-web.scm (ghc-http-client-restricted)
(ghc-blaze-html, ghc-happstack-server, ghc-sourcemap)[home-page]:
Likewise.
* gnu/packages/haskell-xyz.scm (ghc-assoc, ghc-cairo, ghc-cborg)
(ghc-csv, ghc-glob, ghc-gtk2hs-buildtools, ghc-hmatrix-gsl-stats)
(ghc-intervalmap, ghc-lens-family-core, ghc-managed, ghc-mountpoints)
(ghc-network-multicast, ghc-optional-args, ghc-regex, ghc-spoon)
(ghc-transformers, ghc-turtle, ghc-utf8-light, ghc-wizards)
(ghc-template-haskell, ghc-boot-th, ghc-binary-orphans)
(ghc-postgresql-simple)[home-page]: Likewise.
* gnu/packages/hexedit.scm (ht, bvi)[home-page]: Likewise.
* gnu/packages/hunspell.scm (hunspell-dict-hu)[home-page]: Likewise.
* gnu/packages/image-processing.scm (mia)[home-page]: Likewise.
* gnu/packages/image-viewers.scm (geeqie, gpicview, luminance-hdr)
(qiv)[home-page]: Likewise.
* gnu/packages/image.scm (libuemf, devil, steghide, optipng, niftilib)
(sng, mtpaint)[home-page]: Likewise.
* gnu/packages/java-xml.scm (java-simple-xml, java-jaxp)
(java-apache-xml-commons-resolver)[home-page]: Likewise.
* gnu/packages/java.scm (java-cisd-base, java-cisd-args4j)
(java-hamcrest-core, java-jsr305, java-eclipse-osgi)
(java-eclipse-equinox-common, java-eclipse-core-jobs)
(java-eclipse-equinox-registry, java-eclipse-equinox-app)
(java-eclipse-equinox-preferences, java-eclipse-core-contenttype)
(java-eclipse-text, java-treelayout, java-aopalliance, java-jeromq)
(java-cdi-api)[home-page]: Likewise.
* gnu/packages/jemalloc.scm (jemalloc-4.5.0)[home-page]: Likewise.
* gnu/packages/julia-xyz.scm (julia-recipespipeline)[home-page]:
Likewise.
* gnu/packages/kde-internet.scm (kget)[home-page]: Likewise.
* gnu/packages/kde-systemtools.scm (dolphin-plugins)
(konsole)[home-page]: Likewise.
* gnu/packages/kodi.scm (fstrcmp)[home-page]: Likewise.
* gnu/packages/language.scm (hime, libchewing)[home-page]: Likewise.
* gnu/packages/lego.scm (nqc)[home-page]: Likewise.
* gnu/packages/lesstif.scm (lesstif)[home-page]: Likewise.
* gnu/packages/libcanberra.scm (libcanberra)[home-page]: Likewise.
* gnu/packages/libdaemon.scm (libdaemon)[home-page]: Likewise.
* gnu/packages/libffi.scm (libffi)[home-page]: Likewise.
* gnu/packages/libreoffice.scm (libwpd, libwpg, libwps)[home-page]:
Likewise.
* gnu/packages/libusb.scm (libmtp, gmtp)[home-page]: Likewise.
* gnu/packages/linux.scm (e2fsprogs, extundelete, lsscsi, net-tools)
(kbd, sysfsutils, cpuid, libpfm4)[home-page]: Likewise.
* gnu/packages/lisp-check.scm (sbcl-ptester, sbcl-xlunit)[home-page]:
Likewise.
* gnu/packages/lisp-xyz.scm (sbcl-html-encode, sbcl-py-configparser)
(sbcl-cl-utilities, sbcl-series, sbcl-uffi, sbcl-clsql, sbcl-sycamore)
(sbcl-osicat, sbcl-hu.dwim.common, sbcl-caveman, sbcl-trivial-shell)
(sbcl-trivial-benchmark, sbcl-screamer, sbcl-smug)[home-page]: Likewise.
* gnu/packages/lisp.scm (lush2)[home-page]: Likewise.
* gnu/packages/logging.scm (log4cpp)[home-page]: Likewise.
* gnu/packages/lua.scm (lua-ldoc)[home-page]: Likewise.
* gnu/packages/machine-learning.scm (mcl, openfst, rxcpp)[home-page]:
Likewise.
* gnu/packages/mail.scm (muchsync, procmail, sendmail)
(opensmtpd-filter-dkimsign, crm114)[home-page]: Likewise.
* gnu/packages/man.scm (libpipeline, man-db)[home-page]: Likewise.
* gnu/packages/maths.scm (lapack, scalapack, hdf-eos5, itpp, gmsh)
(metamath, p4est, armadillo, suitesparse, atlas, lpsolve, wcalc, why3)
(frama-c)[home-page]: Likewise.
* gnu/packages/mcrypt.scm (mcrypt, libmcrypt, libmhash)[home-page]:
Likewise.
* gnu/packages/minetest.scm (minetest-advtrains)[home-page]: Likewise.
* gnu/packages/monitoring.scm (python-whisper, python-carbon)
(hostscope)[home-page]: Likewise.
* gnu/packages/mp3.scm (id3lib, libmp3splt, mp3splt, mpg321)
(lame)[home-page]: Likewise.
* gnu/packages/multiprecision.scm (mpc)[home-page]: Likewise.
* gnu/packages/music.scm (aria-maestosa, lingot, setbfree, bristol)
(portmidi, python-pyportmidi, zynaddsubfx, yoshimi, aj-snapshot)
(schismtracker, midicsv, midicsv, qmidiarp, qmidiroute, dssi, tap-lv2)
(shiru-lv2)[home-page]: Likewise.
* gnu/packages/ncurses.scm (stfl)[home-page]: Likewise.
* gnu/packages/networking.scm (lksctp-tools, mbuffer, ifstatus, bird)
(tunctl, traceroute)[home-page]: Likewise.
* gnu/packages/node-xyz.scm (node-mersenne)[home-page]: Likewise.
* gnu/packages/ntp.scm (openntpd)[home-page]: Likewise.
* gnu/packages/ocaml.scm (opam, hevea, ocaml-menhir, ocaml-piqilib)
(ocaml-graph, cubicle)[home-page]: Likewise.
* gnu/packages/opencl.scm (python-pyopencl)[home-page]: Likewise.
* gnu/packages/package-management.scm (xstow, modules)[home-page]:
Likewise.
* gnu/packages/parallel.scm (xjobs)[home-page]: Likewise.
* gnu/packages/pdf.scm (podofo, qpdf, xournal, impressive)[home-page]:
Likewise.
* gnu/packages/perl.scm (perl-math-vecstat, perltidy)[home-page]:
Likewise.
* gnu/packages/photo.scm (libpano13, enblend-enfuse, hugin)[home-page]:
Likewise.
* gnu/packages/plan9.scm (drawterm)[home-page]: Likewise.
* gnu/packages/plotutils.scm (guile-charting, ploticus)[home-page]:
Likewise.
* gnu/packages/popt.scm (argtable, popt)[home-page]: Likewise.
* gnu/packages/profiling.scm (otf2)[home-page]: Likewise.
* gnu/packages/pulseaudio.scm (pulseaudio)[home-page]: Likewise.
* gnu/packages/python-check.scm (python-mypy)[home-page]: Likewise.
* gnu/packages/python-web.scm (python-cssutils)
(python-translationstring)[home-page]: Likewise.
* gnu/packages/python-xyz.scm (python-diskcache, python-doxyqml)
(python-docutils, python-pexpect, python-importlib-resources)
(python-simplegeneric, python-urwid, python-xlrd, python-xlwt)
(python-pyasn1, python-pythondialog, python-tftpy, python-random2)
(python-arcp, python-pyopengl, python-sortedcollections)
(python-sortedcontainers, python-yapsy, python-pydispatcher)
(python-posix-ipc)[home-page]: Likewise.
* gnu/packages/qt.scm (qwt, libqglviewer, signond)[home-page]: Likewise.
* gnu/packages/radio.scm (unixcw, gnuais)[home-page]: Likewise.
* gnu/packages/raspberry-pi.scm (bcm2835)[home-page]: Likewise.
* gnu/packages/rdf.scm (clucene, rasqal, redland)[home-page]: Likewise.
* gnu/packages/regex.scm (tre)[home-page]: Likewise.
* gnu/packages/rsync.scm (librsync)[home-page]: Likewise.
* gnu/packages/ruby.scm (ruby-packnga, ruby-nokogiri, ruby-oj, ruby-ox)
(ruby-sinatra, ruby-citrus, ruby-cbor, ruby-roda)[home-page]: Likewise.
* gnu/packages/scheme.scm (scheme48, tinyscheme)[home-page]: Likewise.
* gnu/packages/screen.scm (dtach)[home-page]: Likewise.
* gnu/packages/scsi.scm (sg3-utils)[home-page]: Likewise.
* gnu/packages/sdl.scm (libmikmod, sdl-pango)[home-page]: Likewise.
* gnu/packages/shellutils.scm (hstr, rig)[home-page]: Likewise.
* gnu/packages/simulation.scm (python-dolfin-adjoint)[home-page]:
Likewise.
* gnu/packages/smalltalk.scm (smalltalk)[home-page]: Likewise.
* gnu/packages/speech.scm (espeak)[home-page]: Likewise.
* gnu/packages/stalonetray.scm (stalonetray)[home-page]: Likewise.
* gnu/packages/statistics.scm (jags, r-mass, r-class, r-lattice)
(r-matrix, r-nnet, r-spatial, r-bit, r-bit64, r-digest, r-xtable)
(python-statsmodels, r-ade4, r-latticeextra, r-rcurl, r-xml, r-mvtnorm)
(r-robustbase, r-minqa, r-fdrtool, java-jdistlib, xlispstat)[home-page]:
Likewise.
* gnu/packages/swig.scm (swig)[home-page]: Likewise.
* gnu/packages/task-management.scm (wtime)[home-page]: Likewise.
* gnu/packages/tcl.scm (itcl, tclxml, tclx)[home-page]: Likewise.
* gnu/packages/terminals.scm (libtermkey, mlterm, libvterm)
(libvterm)[home-page]: Likewise.
* gnu/packages/tex.scm (texlive-lm, texlive-lm-math, texlive-cs)
(texlive-csplain, biber, texmaker)[home-page]: Likewise.
* gnu/packages/text-editors.scm (joe)[home-page]: Likewise.
* gnu/packages/textutils.scm (drm-tools, docx2txt)[home-page]: Likewise.
* gnu/packages/tv.scm (tvtime)[home-page]: Likewise.
* gnu/packages/unicode.scm (libunibreak)[home-page]: Likewise.
* gnu/packages/upnp.scm (libupnp)[home-page]: Likewise.
* gnu/packages/version-control.scm (cvs)[home-page]: Likewise.
* gnu/packages/video.scm (transcode, libquicktime, mjpegtools, aalib)
(liba52, libmpeg2, x265, libdv, dvdauthor, aegisub, pitivi, gavl)
(dvdbackup, guvcview, video-contact-sheet)[home-page]: Likewise.
* gnu/packages/virtualization.scm (bochs)[home-page]: Likewise.
* gnu/packages/w3m.scm (w3m)[home-page]: Likewise.
* gnu/packages/web.scm (qjson, libquvi-scripts, libquvi, quvi)
(tidy-html, htmlcxx)[home-page]: Likewise.
* gnu/packages/wm.scm (evilwm, menumaker)[home-page]: Likewise.
* gnu/packages/wv.scm (wv)[home-page]: Likewise.
* gnu/packages/wxwidgets.scm (wxsvg)[home-page]: Likewise.
* gnu/packages/xdisorg.scm (mtdev, xsel)[home-page]: Likewise.
* gnu/packages/xfig.scm (xfig, transfig)[home-page]: Likewise.
* gnu/packages/xml.scm (openjade, python-pyxb, xmlstarlet, xmlrpc-c)
(opensp)[home-page]: Likewise.
* gnu/packages/xorg.scm (xf86-video-qxl)[home-page]: Likewise.
2023-02-19 01:00:01 +01:00
Ricardo Wurmus
0b78144688
gnu: r-abn: Update to 2.7-3.
* gnu/packages/bioconductor.scm (r-abn): Update to 2.7-3.
2023-02-18 19:56:30 +01:00
Ricardo Wurmus
854fea4618
gnu: r-wgcna: Update to 1.72-1.
* gnu/packages/bioconductor.scm (r-wgcna): Update to 1.72-1.
2023-02-18 19:56:30 +01:00
Mădălin Ionel Patrașcu
e7b4b691da
gnu: Add r-adacgh2.
* gnu/packages/bioconductor.scm (r-adacgh2): New variable.

Co-authored-by: Ricardo Wurmus <rekado@elephly.net>
2023-02-07 10:30:00 +01:00
Mădălin Ionel Patrașcu
d451470b5d
gnu: Add r-beadarraysnp.
* gnu/packages/bioconductor.scm (r-beadarraysnp): New variable.
2023-02-07 10:30:00 +01:00
Mădălin Ionel Patrașcu
4fb1703a0a
gnu: Add r-quantsmooth.
* gnu/packages/bioconductor.scm (r-quantsmooth): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
b4d90dfdb8
gnu: Add r-snapcgh.
* gnu/packages/bioconductor.scm (r-snapcgh): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
372843576d
gnu: Add r-tilingarray.
* gnu/packages/bioconductor.scm (r-tilingarray): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
c738ab4805
gnu: Add r-manor.
* gnu/packages/bioconductor.scm (r-manor): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
8dc953fe5d
gnu: Add r-italics.
* gnu/packages/bioconductor.scm (r-italics): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
b065772152
gnu: Add r-pd-mapping50k-xba240.
* gnu/packages/bioconductor.scm (r-pd-mapping50k-xba240): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
c8734d7873
gnu: Add r-italicsdata.
* gnu/packages/bioconductor.scm (r-italicsdata): New variable.
2023-02-07 10:29:59 +01:00
Mădălin Ionel Patrașcu
27178151c3
gnu: Add r-glad.
* gnu/packages/bioconductor.scm (r-glad): New variable.
2023-02-07 10:29:59 +01:00
Navid Afkhami
7c798cd9e4
gnu: Add r-bcellviper.
* gnu/packages/bioconductor.scm (r-bcellviper): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2023-02-03 16:05:51 +01:00
Mădălin Ionel Patrașcu
ac32f93df3
gnu: Add r-anvil.
* gnu/packages/bioconductor.scm (r-anvil): New variable.
2023-01-22 09:16:18 +01:00
Ricardo Wurmus
9fc3e4fb26
gnu: r-speaq: Fix description.
* gnu/packages/bioconductor.scm (r-speaq)[description]: Reword.
2023-01-22 09:12:50 +01:00
Mădălin Ionel Patrașcu
3d9516344e
gnu: Add r-alpsnmr.
* gnu/packages/bioconductor.scm (r-alpsnmr): New variable.
2023-01-22 08:56:51 +01:00
Mădălin Ionel Patrașcu
b374a45eb0
gnu: Add r-speaq.
* gnu/packages/bioconductor.scm (r-speaq): New variable.
2023-01-22 08:56:51 +01:00
Navid Afkhami
072f605c12
gnu: Add r-scds.
* gnu/packages/bioconductor.scm (r-scds): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2023-01-20 11:01:31 +01:00
Simon Tournier
c31d8adcb0
gnu: Add r-numbat.
* gnu/packages/bioconductor.scm (r-numbat): New variable.
2023-01-20 10:44:28 +01:00
Simon Tournier
f145afd16f
gnu: Add r-scistreer.
* gnu/packages/bioconductor.scm (r-scistreer): New variable.
2023-01-20 10:44:27 +01:00
Mădălin Ionel Patrașcu
fda2d75d8d
gnu: Add r-breakpointr.
* gnu/packages/bioconductor.scm (r-breakpointr): New variable.
2023-01-18 22:43:58 +01:00
Mădălin Ionel Patrașcu
4f7ef3f528
gnu: Add r-breakpointrdata.
* gnu/packages/bioconductor.scm (r-breakpointrdata): New variable.

Signed-off-by: Ricardo Wurmus <rekado@elephly.net>
2023-01-18 22:43:58 +01:00
Mădălin Ionel Patrașcu
3e1c85b7ec
gnu: Add r-maser.
* gnu/packages/bioconductor.scm (r-maser): New variable.
2023-01-14 08:13:54 +01:00
Ricardo Wurmus
8423ca9da8
gnu: r-biocset: Update to 1.12.1.
* gnu/packages/bioconductor.scm (r-biocset): Update to 1.12.1.
2023-01-09 23:08:36 +01:00
Ricardo Wurmus
8ee7f8df76
gnu: r-biocviews: Update to 1.66.2.
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.66.2.
2023-01-09 23:08:36 +01:00
Ricardo Wurmus
d41e85678a
gnu: r-variancepartition: Update to 1.28.1.
* gnu/packages/bioconductor.scm (r-variancepartition): Update to 1.28.1.
[propagated-inputs]: Add r-remacor.
2023-01-09 23:08:36 +01:00
Ricardo Wurmus
850638df5a
gnu: r-flowworkspace: Update to 4.10.1.
* gnu/packages/bioconductor.scm (r-flowworkspace): Update to 4.10.1.
[propagated-inputs]: Remove r-aws-s3, r-aws-signature, r-digest, r-lattice,
r-latticeextra, r-rcpp, r-rcpparmadillo, and r-rcppparallel; add
r-cpp11.
2023-01-09 23:08:36 +01:00
Ricardo Wurmus
3ac0f4e62c
gnu: r-batchelor: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-batchelor): Update to 1.14.1.
2023-01-09 23:08:35 +01:00
Ricardo Wurmus
aca59da931
gnu: r-msnbase: Update to 2.24.2.
* gnu/packages/bioconductor.scm (r-msnbase): Update to 2.24.2.
2023-01-09 23:08:35 +01:00
Ricardo Wurmus
f5629558b1
gnu: r-genomeinfodb: Update to 1.34.6.
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.34.6.
2023-01-09 23:08:35 +01:00
Ricardo Wurmus
b37a9bfba6
gnu: r-bsgenome: Update to 1.66.2.
* gnu/packages/bioconductor.scm (r-bsgenome): Update to 1.66.2.
2023-01-09 23:08:35 +01:00
Ricardo Wurmus
3072990b03
gnu: r-biocparallel: Update to 1.32.5.
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.32.5.
2023-01-09 23:07:58 +01:00
Ricardo Wurmus
fd4ca4a266
gnu: r-kegggraph: Update to 1.58.3.
* gnu/packages/bioconductor.scm (r-kegggraph): Update to 1.58.3.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
cfa8d448bc
gnu: r-scran: Update to 1.26.1.
* gnu/packages/bioconductor.scm (r-scran): Update to 1.26.1.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
71c115fd94
gnu: r-scuttle: Update to 1.8.3.
* gnu/packages/bioconductor.scm (r-scuttle): Update to 1.8.3.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
c4cbfa40d8
gnu: r-chromvar: Update to 1.20.1.
* gnu/packages/bioconductor.scm (r-chromvar): Update to 1.20.1.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
68701917b8
gnu: r-s4vectors: Update to 0.36.1.
* gnu/packages/bioconductor.scm (r-s4vectors): Update to 0.36.1.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
e895da0406
gnu: r-preprocesscore: Update to 1.60.1.
* gnu/packages/bioconductor.scm (r-preprocesscore): Update to 1.60.1.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
18468f775e
gnu: r-biocviews: Update to 1.66.1.
* gnu/packages/bioconductor.scm (r-biocviews): Update to 1.66.1.
[native-inputs]: Add r-knitr.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
fc617e70e6
gnu: r-rcistarget: Update to 1.18.2.
* gnu/packages/bioconductor.scm (r-rcistarget): Update to 1.18.2.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
031dbcbd0e
gnu: r-opencyto: Update to 2.10.1.
* gnu/packages/bioconductor.scm (r-opencyto): Update to 2.10.1.
[propagated-inputs]: Remove r-clue, r-flowstats, r-gtools, r-ks, r-lattice, r-mass,
r-plyr, r-r-utils, r-rcpp, and r-rrcov; add r-bh and r-cpp11.
2022-12-20 12:09:34 +01:00
Ricardo Wurmus
7edcbf84bf
gnu: r-ggcyto: Update to 1.26.4.
* gnu/packages/bioconductor.scm (r-ggcyto): Update to 1.26.4.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
5ac36a82e8
gnu: r-rsubread: Update to 2.12.2.
* gnu/packages/bioconductor.scm (r-rsubread): Update to 2.12.2.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
90b10b37e8
gnu: r-iclusterplus: Update to 1.34.2.
* gnu/packages/bioconductor.scm (r-iclusterplus): Update to 1.34.2.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
7f45db2df8
gnu: r-aucell: Update to 1.20.2.
* gnu/packages/bioconductor.scm (r-aucell): Update to 1.20.2.
[propagated-inputs]: Add r-matrix.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
da24c1c949
gnu: r-clusterexperiment: Update to 2.18.1.
* gnu/packages/bioconductor.scm (r-clusterexperiment): Update to 2.18.1.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
2e10df101f
gnu: r-enrichplot: Update to 1.18.3.
* gnu/packages/bioconductor.scm (r-enrichplot): Update to 1.18.3.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
7205384533
gnu: r-sigpathway: Update to 1.66.1.
* gnu/packages/bioconductor.scm (r-sigpathway): Update to 1.66.1.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
ceffbc313f
gnu: r-linnorm: Update to 2.22.1.
* gnu/packages/bioconductor.scm (r-linnorm): Update to 2.22.1.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
2eb81c0888
gnu: r-lpsymphony: Update to 1.26.2.
* gnu/packages/bioconductor.scm (r-lpsymphony): Update to 1.26.2.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
b51001141b
gnu: r-dnacopy: Update to 1.72.2.
* gnu/packages/bioconductor.scm (r-dnacopy): Update to 1.72.2.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
96508fa43a
gnu: r-glmgampoi: Update to 1.10.1.
* gnu/packages/bioconductor.scm (r-glmgampoi): Update to 1.10.1.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
c47fd0c47c
gnu: r-diffbind: Update to 3.8.3.
* gnu/packages/bioconductor.scm (r-diffbind): Update to 3.8.3.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
a13f5a52d0
gnu: r-oligo: Update to 1.62.1.
* gnu/packages/bioconductor.scm (r-oligo): Update to 1.62.1.
2022-12-20 12:09:33 +01:00
Ricardo Wurmus
9e18e3a372
gnu: r-tximport: Update to 1.26.1.
* gnu/packages/bioconductor.scm (r-tximport): Update to 1.26.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
dc6f9ab3ab
gnu: r-scmap: Update to 1.20.1.
* gnu/packages/bioconductor.scm (r-scmap): Update to 1.20.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
5fc338637b
gnu: r-lfa: Update to 1.28.1.
* gnu/packages/bioconductor.scm (r-lfa): Update to 1.28.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
53fb765c85
gnu: r-impute: Update to 1.72.2.
* gnu/packages/bioconductor.scm (r-impute): Update to 1.72.2.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
b035f07cc2
gnu: r-genomicranges: Update to 1.50.2.
* gnu/packages/bioconductor.scm (r-genomicranges): Update to 1.50.2.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
a4362f4599
gnu: r-genomicfeatures: Update to 1.50.3.
* gnu/packages/bioconductor.scm (r-genomicfeatures): Update to 1.50.3.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
86fcb20aa8
gnu: r-genomeinfodb: Update to 1.34.4.
* gnu/packages/bioconductor.scm (r-genomeinfodb): Update to 1.34.4.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
a71a89ac39
gnu: r-genefilter: Update to 1.80.2.
* gnu/packages/bioconductor.scm (r-genefilter): Update to 1.80.2.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
6af97fcc0e
gnu: r-edger: Update to 3.40.1.
* gnu/packages/bioconductor.scm (r-edger): Update to 3.40.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
db6ae57157
gnu: r-deseq2: Update to 1.38.2.
* gnu/packages/bioconductor.scm (r-deseq2): Update to 1.38.2.
[propagated-inputs]: Remove r-genefilter; add r-matrixstats.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
74be5ec3e8
gnu: r-biocparallel: Update to 1.32.4.
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.32.4.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
e757936b96
gnu: r-deconvr: Update to 1.4.3.
* gnu/packages/bioconductor.scm (r-deconvr): Update to 1.4.3.
[propagated-inputs]: Add r-minfi.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
d2666970d1
gnu: r-damefinder: Update to 1.10.1.
* gnu/packages/bioconductor.scm (r-damefinder): Update to 1.10.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
72f9c4312b
gnu: r-bandits: Update to 1.14.1.
* gnu/packages/bioconductor.scm (r-bandits): Update to 1.14.1.
2022-12-20 12:09:32 +01:00
Ricardo Wurmus
d7fda90354
gnu: r-bambu: Update to 3.0.5.
* gnu/packages/bioconductor.scm (r-bambu): Update to 3.0.5.
2022-12-20 12:09:31 +01:00
Ricardo Wurmus
64ed2e8380
gnu: r-ancombc: Update to 2.0.2.
* gnu/packages/bioconductor.scm (r-ancombc): Update to 2.0.2.
2022-12-20 12:09:31 +01:00
zimoun
97ef08c207
gnu: Add r-cardelino.
* gnu/packages/bioconductor.scm (r-cardelino): New variable.
2022-12-19 19:22:04 +01:00
Mădălin Ionel Patrașcu
b9014985be
gnu: Add r-asics.
* gnu/packages/bioconductor.scm (r-asics): New variable.
2022-12-12 18:41:13 +01:00
Mădălin Ionel Patrașcu
061ce5500a
gnu: Add r-pepsnmr.
* gnu/packages/bioconductor.scm (r-pepsnmr): New variable.
2022-12-12 18:40:46 +01:00
Mădălin Ionel Patrașcu
e0746ee4c4
gnu: Add r-animalcules.
* gnu/packages/bioconductor.scm (r-animalcules): New variable.
2022-12-12 17:30:05 +01:00
Mădălin Ionel Patrașcu
5fb5af5658
gnu: Add r-amplican.
* gnu/packages/bioconductor.scm (r-amplican): New variable.
2022-12-12 15:50:28 +01:00
Mădălin Ionel Patrașcu
8363719476
gnu: Add r-harshlight.
* gnu/packages/bioconductor.scm (r-harshlight): New variable.
2022-12-12 15:37:15 +01:00
Mădălin Ionel Patrașcu
85d5ce4901
gnu: Add r-altcdfenvs.
* gnu/packages/bioconductor.scm (r-altcdfenvs): New variable.
2022-12-12 15:37:15 +01:00
Mădălin Ionel Patrașcu
97b36ca4d3
gnu: Add r-makecdfenv.
* gnu/packages/bioconductor.scm (r-makecdfenv): New variable.
2022-12-12 15:37:15 +01:00
Mădălin Ionel Patrașcu
a712c07d6a
gnu: Add r-metaneighbor.
* gnu/packages/bioconductor.scm (r-metaneighbor): New variable.
2022-12-01 11:41:05 +01:00
Ricardo Wurmus
cef2cbb295
gnu: r-biodb: Update to 1.6.1.
* gnu/packages/bioconductor.scm (r-biodb): Update to 1.6.1.
2022-11-30 11:28:48 +01:00
Ricardo Wurmus
95e62fb993
gnu: r-biocparallel: Update to 1.32.3.
* gnu/packages/bioconductor.scm (r-biocparallel): Update to 1.32.3.
2022-11-30 11:28:48 +01:00
Ricardo Wurmus
6b825d9cb9
gnu: r-alpine: Update to 1.24.0.
* gnu/packages/bioconductor.scm (r-alpine): Update to 1.24.0.
2022-11-30 11:28:44 +01:00
Ricardo Wurmus
08fb5279a5
gnu: r-nmf: Update to 0.25.
* gnu/packages/bioconductor.scm (r-nmf): Update to 0.25.
[propagated-inputs]: Remove r-pkgmaker; add r-codetools.
2022-11-29 15:27:20 +01:00
Ricardo Wurmus
059d38dc3f
gnu: Add r-glmgampoi.
* gnu/packages/bioconductor.scm (r-glmgampoi): New variable.
2022-11-28 11:23:49 +01:00