Tools for investigating RNA-Seq


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Documentation for package ‘sleuth’ version 0.27.3

Help Pages

basic_filter Basic row filter
design_matrix Extract design matrix
get_bootstraps Extract bootstrap for a specific transcript
get_col Get a data.frame from all kallisto objects
kallisto_table Get kallisto abundance table from a sleuth object
models View which models have been fit
norm_factors Normalization factors
plot_bootstrap Plot bootstrap summary
plot_group_density Plot density
plot_ma MA plot
plot_mean_var Mean-variance relationship
plot_pca Plot PCA
plot_qqnorm QQ norm plot
plot_sample_density Plot sample density
plot_sample_heatmap Plot sample heatmap
plot_scatter Sample to sample scatter plot
plot_transcript_heatmap Plot clustered heatmap
plot_vars Plot technical variance versus observed variance
plot_volcano Plot volcano plot
print.sleuth_model Print sleuth model
read_kallisto_h5 Read a kallisto object from an HDF5 file
sleuth_fit Fit a measurement error model
sleuth_gene_table Create a gene table from a sleuth object
sleuth_live Interactive sleuth visualization with Shiny
sleuth_prep Constructor for a 'sleuth' object
sleuth_results Extract Wald test results from a sleuth object
sleuth_test Wald test for a sleuth model
sleuth_to_matrix Convert a sleuth object to matrix
transcripts_from_gene Get the names of the transcripts associated to a gene