# This file created by conda-build 3.24.0
# meta.yaml template originally from:
# /opt/recipe, last modified Fri Dec 15 01:33:26 2023
# ------------------------------------------------

package:
  name: bioconductor-gdcrnatools
  version: 1.22.0
source:
  md5: bf97cefce864ca1443cb0b0d53601799
  url:
    - https://bioarchive.galaxyproject.org/GDCRNATools_1.22.0.tar.gz
    - https://bioconductor.org/packages/3.18/bioc/src/contrib/Archive/GDCRNATools/GDCRNATools_1.22.0.tar.gz
    - https://bioconductor.org/packages/3.18/bioc/src/contrib/GDCRNATools_1.22.0.tar.gz
    - https://depot.galaxyproject.org/software/bioconductor-gdcrnatools/bioconductor-gdcrnatools_1.22.0_src_all.tar.gz
build:
  noarch: generic
  number: '0'
  rpaths:
    - lib/
    - lib/R/lib/
  run_exports: bioconductor-gdcrnatools >=1.22.0,<1.23.0a0
  string: r43hdfd78af_0
requirements:
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    - r-vctrs 0.6.5 r43ha503ecb_0
    - r-viridis 0.6.4 r43hc72bb7e_0
    - r-viridislite 0.4.2 r43hc72bb7e_1
    - r-vroom 1.6.5 r43ha503ecb_0
    - r-withr 2.5.2 r43hc72bb7e_0
    - r-writexl 1.4.2 r43h57805ef_1
    - r-xfun 0.41 r43ha503ecb_0
    - r-xml 3.99_0.16 r43hc38eee6_0
    - r-xml2 1.3.6 r43h1ad5fc0_0
    - r-xtable 1.8_4 r43hc72bb7e_5
    - r-yaml 2.3.8 r43h57805ef_0
    - r-yulab.utils 0.1.1 r43hc72bb7e_0
    - r-zoo 1.8_12 r43h57805ef_1
    - re2 2023.06.02 h2873b5e_0
    - readline 8.2 h8228510_1
    - s2n 1.4.0 h06160fa_0
    - sed 4.8 he412f7d_0
    - setuptools 68.2.2 pyhd8ed1ab_0
    - snappy 1.1.10 h9fff704_0
    - sysroot_linux-64 2.12 he073ed8_16
    - tk 8.6.13 noxft_h4845f30_101
    - tktable 2.10 h0c5db8f_5
    - toml 0.10.2 pyhd8ed1ab_0
    - tomlkit 0.12.3 pyha770c72_0
    - tzdata 2023c h71feb2d_0
    - wheel 0.42.0 pyhd8ed1ab_0
    - xmltodict 0.13.0 pyhd8ed1ab_0
    - xorg-kbproto 1.0.7 h7f98852_1002
    - xorg-libice 1.1.1 hd590300_0
    - xorg-libsm 1.2.4 h7391055_0
    - xorg-libx11 1.8.7 h8ee46fc_0
    - xorg-libxau 1.0.11 hd590300_0
    - xorg-libxdmcp 1.1.3 h7f98852_0
    - xorg-libxext 1.3.4 h0b41bf4_2
    - xorg-libxrender 0.9.11 hd590300_0
    - xorg-libxt 1.3.0 hd590300_1
    - xorg-renderproto 0.11.1 h7f98852_1002
    - xorg-xextproto 7.3.0 h0b41bf4_1003
    - xorg-xproto 7.0.31 h7f98852_1007
    - xz 5.2.6 h166bdaf_0
    - yaml 0.2.5 h7f98852_2
    - yq 3.2.3 pyhd8ed1ab_0
    - zlib 1.2.13 hd590300_5
    - zstd 1.5.5 hfc55251_0
  run:
    - bioconductor-biocparallel >=1.36.0,<1.37.0
    - bioconductor-biomart >=2.58.0,<2.59.0
    - bioconductor-clusterprofiler >=4.10.0,<4.11.0
    - bioconductor-deseq2 >=1.42.0,<1.43.0
    - bioconductor-dose >=3.28.0,<3.29.0
    - bioconductor-edger >=4.0.0,<4.1.0
    - bioconductor-genomicdatacommons >=1.26.0,<1.27.0
    - bioconductor-limma >=3.58.0,<3.59.0
    - bioconductor-org.hs.eg.db >=3.18.0,<3.19.0
    - bioconductor-pathview >=1.42.0,<1.43.0
    - r-base >=4.3,<4.4.0a0
    - r-dt
    - r-ggplot2
    - r-gplots
    - r-jsonlite
    - r-rjson
    - r-shiny
    - r-survival
    - r-survminer
    - r-xml
test:
  commands:
    - $R -e "library('GDCRNATools')"
about:
  description: This is an easy-to-use package for downloading, organizing, and integrative
    analyzing RNA expression data in GDC with an emphasis on deciphering the lncRNA-mRNA
    related ceRNA regulatory network in cancer. Three databases of lncRNA-miRNA interactions
    including spongeScan, starBase, and miRcode, as well as three databases of mRNA-miRNA
    interactions including miRTarBase, starBase, and miRcode are incorporated into
    the package for ceRNAs network construction. limma, edgeR, and DESeq2 can be used
    to identify differentially expressed genes/miRNAs. Functional enrichment analyses
    including GO, KEGG, and DO can be performed based on the clusterProfiler and DO
    packages. Both univariate CoxPH and KM survival analyses of multiple genes can
    be implemented in the package. Besides some routine visualization functions such
    as volcano plot, bar plot, and KM plot, a few simply shiny apps are developed
    to facilitate visualization of results on a local webpage.
  home: https://bioconductor.org/packages/3.18/bioc/html/GDCRNATools.html
  license: Artistic-2.0
  summary: 'GDCRNATools: an R/Bioconductor package for integrative analysis of lncRNA,
    mRNA, and miRNA data in GDC'
extra:
  copy_test_source_files: true
  final: true
