Welcome to GRATIOSA’s documentation!

Contents:

• Presentation
  • GRATIOSA
  • How to install the package?
  • General presentation
  • How to use GRATIOSA?
  • Documentation
• Genome
  • class methods
    • Genome
  • useful functions
    • read_seq()
    • update_NCBI_genomes()
    • load_gff()
    • load_annot_general()
    • load_TSS_cond()
    • load_TTS_cond()
    • load_TU_cond()
• Transcriptome
  • class methods
    • Transcriptome
  • useful functions
    • add_expression_to_genes()
    • load_fc_pval_cond()
    • process_bam()
    • cov_from_reads()
    • cov_start_stop_from_reads()
• Chipseq
  • class methods
    • Chipseq
  • useful functions
• HiC
  • class methods
    • HiC
  • useful functions
    • load_HiC_site_cond()
• plot_genome
  • plot_region()
  • subplot_genes()
  • subplot_rnaseq_coverage()
  • subplot_signal()
• GO
  • GO
• statistical analysis
  • statistical tests
    • data_classification()
    • proportion_test()
    • enrichment_test()
    • quantitative_data_student_test()
  • graphical representation
    • significance()
    • barplot_annotate_brackets()
    • plot_proportion_test()
    • plot_enrichment_test()
    • plot_student_test()
• TSS_TTS_TU
  • TSS
    • TSS.add_genes()
    • TSS.add_promoter()
    • TSS.add_prom_elements()
  • TTS
    • TTS.add_genes()
  • TU
    • TU.add_genes()
    • TU.add_TU_expression()
    • TU.add_TSS()
    • TU.add_TTS()

Indices and tables

• Index

• Module Index

• Search Page