Index Symbols | A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | X | Y | Z Symbols --aoi-size tapqir-glimpse command line option --bin-size tapqir-glimpse command line option --binary tapqir-ttfb command line option --cd tapqir command line option --cpu tapqir-dwelltime command line option tapqir-fit command line option tapqir-stats command line option tapqir-ttfb command line option --cuda tapqir-dwelltime command line option tapqir-fit command line option tapqir-stats command line option tapqir-ttfb command line option --dataset tapqir-glimpse command line option --driftlist tapqir-glimpse command line option --f1 tapqir-show command line option --f2 tapqir-show command line option --fbatch-size tapqir-fit command line option tapqir-stats command line option --frame-end tapqir-glimpse command line option --frame-range tapqir-glimpse command line option --frame-start tapqir-glimpse command line option --funsor tapqir-fit command line option tapqir-stats command line option --glimpse-folder tapqir-glimpse command line option --gui tapqir-show command line option --install-completion tapqir command line option --k-max tapqir-fit command line option --labels tapqir-glimpse command line option --learning-rate tapqir-fit command line option --matlab tapqir-fit command line option tapqir-stats command line option --model tapqir-dwelltime command line option tapqir-fit command line option tapqir-show command line option tapqir-stats command line option tapqir-ttfb command line option --n tapqir-show command line option --name tapqir-glimpse command line option --nbatch-size tapqir-fit command line option tapqir-stats command line option --no-frame-range tapqir-glimpse command line option --no-input tapqir-fit command line option tapqir-glimpse command line option tapqir-stats command line option --no-pykeops tapqir-fit command line option --no-show-fov tapqir-show command line option --no-use-offtarget tapqir-glimpse command line option --num-channels tapqir-glimpse command line option --num-iter tapqir-dwelltime command line option tapqir-fit command line option tapqir-ttfb command line option --num-samples tapqir-dwelltime command line option tapqir-ttfb command line option --num-states tapqir-fit command line option --offset-P tapqir-glimpse command line option --offset-x tapqir-glimpse command line option --offset-y tapqir-glimpse command line option --offtarget-aoiinfo tapqir-glimpse command line option --ontarget-aoiinfo tapqir-glimpse command line option --overwrite tapqir-fit command line option tapqir-glimpse command line option --probabilistic tapqir-ttfb command line option --progress-bar tapqir-dwelltime command line option tapqir-fit command line option tapqir-glimpse command line option tapqir-ttfb command line option --pykeops tapqir-fit command line option --pyro tapqir-fit command line option tapqir-stats command line option --show-completion tapqir command line option --show-fov tapqir-show command line option --use-offtarget tapqir-glimpse command line option --version tapqir command line option -C tapqir-glimpse command line option -f tapqir-fit command line option tapqir-stats command line option -it tapqir-dwelltime command line option tapqir-fit command line option tapqir-ttfb command line option -K tapqir-dwelltime command line option -k tapqir-fit command line option -l tapqir-glimpse command line option -lr tapqir-fit command line option -n tapqir-dwelltime command line option tapqir-fit command line option tapqir-stats command line option tapqir-ttfb command line option -P tapqir-glimpse command line option -S tapqir-fit command line option -w tapqir-fit command line option tapqir-glimpse command line option A association_rate() (in module tapqir.utils.imscroll) B bootstrap() (in module tapqir.utils.imscroll) C C (tapqir.utils.dataset.CosmosDataset property) compute_stats() (tapqir.models.model.Model method) cosmos (class in tapqir.models.cosmos) CosmosDataset (class in tapqir.utils.dataset) count_intervals() (in module tapqir.utils.imscroll) D dissociation_rate() (in module tapqir.utils.imscroll) E expand_offtarget() (in module tapqir.distributions.util) F F (tapqir.utils.dataset.CosmosDataset property) G gaussian_spots() (in module tapqir.distributions.util) guide() (tapqir.models.cosmos.cosmos method) (tapqir.models.hmm.hmm method) (tapqir.models.model.Model method) H hmm (class in tapqir.models.hmm) I init() (tapqir.models.model.Model method) init_parameters() (tapqir.models.cosmos.cosmos method) (tapqir.models.hmm.hmm method) (tapqir.models.model.Model method) K KSMOGN (class in tapqir.distributions.ksmogn) L load() (tapqir.models.model.Model method) load_checkpoint() (tapqir.models.model.Model method) log_prob() (tapqir.distributions.ksmogn.KSMOGN method) M m_probs (tapqir.models.cosmos.cosmos property) (tapqir.models.hmm.hmm property) Model (class in tapqir.models.model) model() (tapqir.models.cosmos.cosmos method) (tapqir.models.hmm.hmm method) (tapqir.models.model.Model method) module tapqir.distributions.ksmogn tapqir.distributions.util tapqir.models.cosmos tapqir.models.hmm tapqir.models.model tapqir.utils.dataset tapqir.utils.imscroll N N (tapqir.utils.dataset.CosmosDataset property) Nc (tapqir.utils.dataset.CosmosDataset property) Nt (tapqir.utils.dataset.CosmosDataset property) O OffsetData (class in tapqir.utils.dataset) P P (tapqir.utils.dataset.CosmosDataset property) posterior_estimate() (in module tapqir.utils.imscroll) probs_m() (in module tapqir.distributions.util) probs_theta() (in module tapqir.distributions.util) pspecific (tapqir.models.cosmos.cosmos property) (tapqir.models.hmm.hmm property) R rsample() (tapqir.distributions.ksmogn.KSMOGN method) run() (tapqir.models.model.Model method) S sample_and_bootstrap() (in module tapqir.utils.imscroll) save_checkpoint() (tapqir.models.model.Model method) T tapqir command line option --cd --install-completion --show-completion --version tapqir-dwelltime command line option --cpu --cuda --model --num-iter --num-samples --progress-bar -it -K -n tapqir-fit command line option --cpu --cuda --fbatch-size --funsor --k-max --learning-rate --matlab --model --nbatch-size --no-input --no-pykeops --num-iter --num-states --overwrite --progress-bar --pykeops --pyro -f -it -k -lr -n -S -w tapqir-glimpse command line option --aoi-size --bin-size --dataset --driftlist --frame-end --frame-range --frame-start --glimpse-folder --labels --name --no-frame-range --no-input --no-use-offtarget --num-channels --offset-P --offset-x --offset-y --offtarget-aoiinfo --ontarget-aoiinfo --overwrite --progress-bar --use-offtarget -C -l -P -w tapqir-show command line option --f1 --f2 --gui --model --n --no-show-fov --show-fov tapqir-stats command line option --cpu --cuda --fbatch-size --funsor --matlab --model --nbatch-size --no-input --pyro -f -n tapqir-ttfb command line option --binary --cpu --cuda --model --num-iter --num-samples --probabilistic --progress-bar -it -n tapqir.distributions.ksmogn module tapqir.distributions.util module tapqir.models.cosmos module tapqir.models.hmm module tapqir.models.model module tapqir.utils.dataset module tapqir.utils.imscroll module theta_probs (tapqir.models.cosmos.cosmos property) (tapqir.models.hmm.hmm property) time_to_first_binding() (in module tapqir.utils.imscroll) to() (tapqir.models.model.Model method) TraceELBO() (tapqir.models.cosmos.cosmos method) (tapqir.models.hmm.hmm method) (tapqir.models.model.Model method) truncated_poisson_probs() (in module tapqir.distributions.util) X x (tapqir.utils.dataset.CosmosDataset property) Y y (tapqir.utils.dataset.CosmosDataset property) Z z_probs (tapqir.models.cosmos.cosmos property) (tapqir.models.hmm.hmm property)