tests/testthat/_snaps/fold_changes.md

In cancerit/RCRISPR: R Functions for CRISPR-Related Analyses

can read sgRNA-level fold change matrix file

Code
  read_fold_change_matrix_file(test_count_matrix_file, id_column = 1,
    gene_column = 2, fc_column = 3:5)
Output
                        sgRNA GENE HELA_T0 HELA_T15A_CTRL HELA_T15B_CTRL
  1 A1BG_CACCTTCGAGCTGCTGCGCG A1BG     478            519            439
  2 A1BG_AAGAGCGCCTCGGTCCCAGC A1BG       0              0              0
  3 A1BG_TGGACTTCCAGCTACGGCGC A1BG     274            193            163

can read gene-level fold change matrix file

Code
  read_fold_change_matrix_file(test_count_matrix_file, id_column = NULL,
    gene_column = 2, fc_column = 3:5, is_gene = T)
Output
    GENE HELA_T0 HELA_T15A_CTRL HELA_T15B_CTRL
  1 A1BG     478            519            439
  2 A1BG       0              0              0
  3 A1BG     274            193            163

can read sgRNA-level fold change matrix file and return processed data

Code
  read_fold_change_matrix_file(test_count_matrix_file, id_column = 1,
    gene_column = 2, fc_column = 3:5, processed = T)
Output
                        sgRNA gene HELA_T0 HELA_T15A_CTRL HELA_T15B_CTRL
  1 A1BG_CACCTTCGAGCTGCTGCGCG A1BG     478            519            439
  2 A1BG_AAGAGCGCCTCGGTCCCAGC A1BG       0              0              0
  3 A1BG_TGGACTTCCAGCTACGGCGC A1BG     274            193            163

can read gene-level fold change matrix fileand return processed data

Code
  read_fold_change_matrix_file(test_count_matrix_file, id_column = NULL,
    gene_column = 2, fc_column = 3:5, is_gene = T, processed = T)
Output
    gene HELA_T0 HELA_T15A_CTRL HELA_T15B_CTRL
  1 A1BG     478            519            439
  2 A1BG       0              0              0
  3 A1BG     274            193            163

can read gene-level fold change matrix file with numeric sample name

Code
  read_fold_change_matrix_file(test_count_matrix_file_with_numeric_sample,
    id_column = 1, gene_column = 2, fc_column = 3:5, is_gene = T, processed = T)
Output
    gene 1HELA_T0 2HELA_T15A_CTRL 3HELA_T15B_CTRL
  1 A1BG      478             519             439
  2 A1BG        0               0               0
  3 A1BG      274             193             163

cancerit/RCRISPR documentation built on April 26, 2023, 10:12 p.m.