API for bitmask/NEMpipeline
Pipeline to run various NEM and non-NEM methods on simulated and 2 experimental datasets
| Global functions | |
|---|---|
| attach_egenes | Source code |
| binary | Source code |
| bootstrap | Source code |
| cluster_bin | Source code |
| decompose | Source code |
| filter_regulon | Source code |
| geneset | Source code |
| get_all_chipseq_data | Source code |
| lfc | Source code |
| make_data | Source code |
| make_lfc | Source code |
| normalize_counts | Source code |
| nullmodel | Source code |
| preprocess | Source code |
| process_with_deseq | Source code |
| process_with_edger | Source code |
| progressive | Source code |
| pvalue | Source code |
| random | Source code |
| reformat | Source code |
| run_ER_pipeline | Source code |
| run_nems | Source code |
| run_simulated_pipeline | Source code |
| set_fn_rate | Source code |
| set_fp_rate | Source code |
| sgene_heatmap | Source code |
| step_010_lfc | Source code |
| step_030_diffexp | Source code |
| step_040_prepare_data | Source code |
| step_042_simulate_data | Source code |
| step_050_nems | Source code |
| step_051_his | Source code |
| step_052_correlation | Source code |
| step_053_lm | Source code |
| step_054_proportionality | Source code |
| step_070_plot | Source code |
| step_080_egenes | Source code |
| step_090_chip | Source code |
| trim_bootstrap | Source code |
| tsne_plot | Source code |
| walk_tree | Source code |
| write_fly_data | Source code |
| wt_h | Source code |
