Man pages for alphabetr
Algorithms for High-Throughput Sequencing of Antigen-Specific T Cells
| bagpipe | Identify candidate alpha/beta pairs. |
| chain_scores | Calculate association scores between alpha and beta chain... |
| combine_freq_results | Combines the frequency estimation results from single TCR... |
| create_clones | Create a synthetic set of clones with a specific underlying... |
| create_data | Simulate sequencing data obtained from the alphabetr approach... |
| create_data_singlecells | Simulate sequencing data obtained single-cell sequencing |
| dual_discrim_dual_likelihood | Calculate likelihood of two beta-sharing candidate alpha-beta... |
| dual_discrim_shared_likelihood | Calculate likelihood of two beta-sharing candidate alpha-beta... |
| dual_eval | Calculate dual depths and false dual rates for simulated... |
| dual_tail | Discriminate between beta-sharing clones and dual-alpha TCR... |
| dual_top | Discriminate between beta-sharing clones and dual-alpha TCR... |
| freq_estimate | Estimation of frequencies of clones identified by 'alphabetr' |
| freq_eval | Calculate the precision, CV, and accuracy of frequency... |
| likelihood_dual | Calculate likelihood curve of frequency estimates for a... |
| likelihood_dualdual | Calculate likelihood curve of frequency estimates for a... |
| likelihood_single | Calculate likelihood curve of frequency estimates for a... |
| read_alphabetr | Read in alphabetr sequencing data into the binary matrix form... |
