Index

F

filter_by_gene_frequency() (in module hicutils.core.filters) filter_by_overall_copies() (in module hicutils.core.filters)

filter_by_presence() (in module hicutils.core.filters) filter_functional() (in module hicutils.core.filters) filter_number_of_pools() (in module hicutils.core.filters)

H

hicutils.core.filters module hicutils.core.io module hicutils.core.metadata module hicutils.plots.cdr3_analysis module

hicutils.plots.clone_size module hicutils.plots.gene_usage module hicutils.plots.overlap module hicutils.plots.shm module

M

make_metadata_table() (in module hicutils.core.metadata) module hicutils.core.filters hicutils.core.io hicutils.core.metadata hicutils.plots.cdr3_analysis hicutils.plots.clone_size hicutils.plots.gene_usage hicutils.plots.overlap hicutils.plots.shm

P

plot_cdr3_aa_usage() (in module hicutils.plots.cdr3_analysis) plot_cdr3_distribution() (in module hicutils.plots.cdr3_analysis) plot_cdr3_logo() (in module hicutils.plots.cdr3_analysis) plot_cdr3_spectratype() (in module hicutils.plots.cdr3_analysis) plot_clone_counts() (in module hicutils.plots.clone_size) plot_clone_sizes() (in module hicutils.plots.clone_size) plot_d_index() (in module hicutils.plots.clone_size) plot_gene_frequency() (in module hicutils.plots.gene_usage) plot_gene_heatmap() (in module hicutils.plots.gene_usage)

plot_most_mutated_pie() (in module hicutils.plots.shm) plot_mutated_fraction() (in module hicutils.plots.shm) plot_shm_aggregate() (in module hicutils.plots.shm) plot_shm_distribution() (in module hicutils.plots.shm) plot_shm_range() (in module hicutils.plots.shm) plot_similarity_heatmap() (in module hicutils.plots.overlap) plot_strings() (in module hicutils.plots.overlap) plot_top_clones() (in module hicutils.plots.clone_size) plot_upset() (in module hicutils.plots.overlap) pull_immunedb_data() (in module hicutils.core.io)

R

read_directory() (in module hicutils.core.io) read_metadata() (in module hicutils.core.io)

read_tsvs() (in module hicutils.core.io) remove_potential_contaminates() (in module hicutils.core.filters)

S

save_fig_and_data() (in module hicutils.core.io)