BEARscc-package | BEARscc (Bayesian ERCC Assesstment of Robustness of Single Cell Clusters) |
. | Reports BEARscc metrics for cells. |
.Random.seed | BEARscc downstream example objects. |
analysis_examples | BEARscc downstream example objects. |
apply_bayes | Estimates noise in single cell data. |
BEARscc | BEARscc (Bayesian ERCC Assesstment of Robustness of Single Cell Clusters) |
BEARscc_clusts.df | BEARscc downstream example objects. |
BEARscc_examples | Example data for BEARscc. |
BEAR_analyzed.sce | BEARscc downstream example objects. |
BEAR_examples.sce | Example data for BEARscc. |
build_dropoutmodel | Estimates noise in single cell data. |
calculate_cell_metrics | Reports BEARscc metrics for cells. |
calculate_cell_metrics_by_cluster | Reports BEARscc metrics for cells. |
calculate_cluster_metrics | Reports BEARscc metrics for clusters. |
calculate_cluster_metrics_by_cluster | Reports BEARscc metrics for clusters. |
cleanup_model_names | Estimates noise in single cell data. |
clusters.df | BEARscc downstream example objects. |
cluster_consensus | Cluster the consensus matrix. |
compute_alpha | Estimates noise in single cell data. |
compute_consensus | Compute consensus matrix. |
compute_genewise_dropouts | Estimates noise in single cell data. |
counts2mpc | Estimates noise in single cell data. |
create_cm | Compute consensus matrix. |
create_null_dropout_model | Estimates noise in single cell data. |
data.counts.df | Example data for BEARscc. |
ERCC.counts.df | Example data for BEARscc. |
ERCC.meta.df | Example data for BEARscc. |
estimate_missingdata | Estimates noise in single cell data. |
estimate_mu2sigma | Estimates noise in single cell data. |
estimate_noiseparameters | Estimates noise in single cell data. |
estimate_undetected2molpercell | Estimates noise in single cell data. |
example_code | Computes 'BEARscc' simulated technical replicates. |
execute_noiseinjected_counts | Computes 'BEARscc' simulated technical replicates. |
execute_sim_replicates | Computes 'BEARscc' simulated technical replicates. |
fill_out_count_probability_table | Computes 'BEARscc' simulated technical replicates. |
genewise_dropouts | Computes 'BEARscc' simulated technical replicates. |
gene_name | Computes 'BEARscc' simulated technical replicates. |
HPC_simulate_replicates | Computes 'BEARscc' simulated technical replicates. |
iterate_alphas | Estimates noise in single cell data. |
iterate_spikeins | Estimates noise in single cell data. |
L1 | Reports BEARscc metrics for clusters. |
mean.prom | Reports BEARscc metrics for clusters. |
melt_spikeins | Estimates noise in single cell data. |
noise_consensus | BEARscc downstream example objects. |
Overall.mean | Reports BEARscc metrics for clusters. |
permute_count_in_dropout_range | Computes 'BEARscc' simulated technical replicates. |
plot_alpha2mu | Estimates noise in single cell data. |
plot_cluster_metrics | Reports BEARscc metrics for clusters. |
plot_mu2sigma | Estimates noise in single cell data. |
plot_obs2actual | Estimates noise in single cell data. |
plot_spikein_fits | Estimates noise in single cell data. |
prepare_data | Estimates noise in single cell data. |
randomizer | Computes 'BEARscc' simulated technical replicates. |
recluster | BEARscc downstream example objects. |
report_cell_metrics | Reports BEARscc metrics for cells. |
report_cluster_metrics | Reports BEARscc metrics for clusters. |
rn | Reports BEARscc metrics for cells. |
sample_models | Estimates noise in single cell data. |
simulate_replicates | Computes 'BEARscc' simulated technical replicates. |
size | Reports BEARscc metrics for clusters. |
subcompute_sample_models | Estimates noise in single cell data. |
subplot_spikein_fits | Estimates noise in single cell data. |
transcripts | Estimates noise in single cell data. |
V1 | Estimates noise in single cell data. |
value | Reports BEARscc metrics for clusters. |
write_noise_model | Estimates noise in single cell data. |