codon_replacement | Replaces codons with synonymous codons |
codon_replacement_reconstruction | Decodes immuneSIM repertoire codon replacements events. |
combine_into_paired | Generates a dataframe from separate heavy and light or beta... |
gen_code | Translation dictionary amino acid <-> nucleotide codon |
hotspot_df | Hotspot dataframe for SHM |
hub_seqs_exclusion | Deletes top hub sequences from repertoire, changing the... |
immuneSIM | Simulates an immune repertoire based on user-defined... |
insertions_and_deletion_lengths_df | Dataframe containing insertion sequences and deletion lengths |
length_dist_simulation | Vector containing VDJ length distributions |
list_example_repertoires | Example repertoires |
list_germline_genes_allele_01 | Collection of germline genes and frequencies |
load_insdel_data | Loads full insertion/deletion data from GitHub |
motif_implantation | Implant random or predefined motifs into CDR3 |
one_spot_df | One Spot |
plot_repertoire_A_vs_B | Comparative plots of main repertoire features of two input... |
plot_report_repertoire | Plots main repertoire features (length distribution,amino... |
shm_event_reconstruction | Decodes immuneSIM repertoire shm_events column. |
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