genetools documentation table of contents

Contents:

• Quick Start
  • Plot gallery
  • Other features
  • Install
  • Usage
  • Development
• API
  • Submodules
  • genetools.arrays module
    • convert_matrix_to_one_element_per_row()
    • get_top_n()
    • get_top_n_percent()
    • get_trim_both_sides_mask()
    • groupby_apply_weighted_value_counts()
    • make_consensus_sequence()
    • make_consensus_vector()
    • make_dummy_variables_in_specific_order()
    • masked_argmax()
    • masked_argmin()
    • numeric_vectors_to_character_arrays()
    • strings_to_character_arrays()
    • strings_to_numeric_vectors()
    • weighted_median()
    • weighted_mode()
    • weighted_value_counts()
  • genetools.helpers module
    • apply_pipeline_transforms()
    • barcode_split()
    • get_off_diagonal_values()
    • horizontal_concat()
    • make_slurm_command()
    • merge_into_left()
    • parallel_groupby_apply()
    • rename_duplicates()
    • vertical_concat()
  • genetools.palette module
    • HueValueStyle
    • convert_palette_list_to_dict()
  • genetools.plots module
    • add_sample_size_to_labels()
    • add_sample_size_to_legend()
    • get_point_size()
    • plot_color_and_size_dotplot()
    • plot_confusion_matrix()
    • plot_triangular_heatmap()
    • plot_two_key_color_and_size_dotplot()
    • savefig()
    • scatterplot()
    • stacked_bar_plot()
    • superimpose_group_labels()
    • two_class_relative_density_plot()
    • wrap_tick_labels()
  • genetools.scanpy_helpers module
    • clr_normalize()
    • find_all_markers()
    • pca_anndata()
    • pca_train_and_test_anndatas()
    • scale_anndata()
    • scale_train_and_test_anndatas()
    • umap_anndata()
    • umap_train_and_test_anndatas()
  • genetools.stats module
    • ConfusionMatrixValues
    • accept_series()
    • clr_normalize()
    • coclustering()
    • interpolate_prc()
    • interpolate_roc()
    • intersect_marker_genes()
    • make_confusion_matrix()
    • normalize_columns()
    • normalize_rows()
    • percentile_normalize()
    • rank_normalize()
    • run_sigmoid_if_binary_and_softmax_if_multiclass()
    • softmax()
    • unpack_confusion_matrix()
  • Module contents
• Changelog
  • 0.7.0
  • 0.6.0
  • 0.5.0 (2022-01-10)
  • 0.4.0 (2020-07-22)
  • 0.3.0 (2020-06-03)
  • 0.2.0 (2020-06-03)
  • 0.1.0 (2020-03-06)