_pkgdown.yml

url: https://anilchalisey.github.io/rseqR/

template:
  params:
    bootswatch: cosmo

authors:
  Anil Chalisey:
    href: https://github.com/anilchalisey
  
reference:
  - title: Full pipeline
    contents: 
      - run_dea
  
  - title: Data import functions
    contents: 
      - check_sample
      - sanity_check
      - run_tximport
  
  - title: FASTQ analysis
    contents:
      - run_fastqc
      - trim_fastq
      - run_multiqc
      
  - title: Salmon functions
    contents:
      - build_index
      - run_salmon
  
  - title: Differential analysis
    contents:
      - deseq2_analysis
      - edger_analysis
      - limma_voom_analysis
      - exploratory_analysis_edger
      - exploratory_analysis_deseq2
      
  - title: Plotting functions
    contents:
      - starts_with("make_")
      
  - title: Miscellaneous functions
    contents:
      - pathway_analysis
      - annotate_data
      - read_salmon