Files in gongx030/seatac

ATAC-seq V-plot analysis

R/AllClass.r R/AllGeneric.r R/add_genomic_features.r R/beta_schedule.r R/cbind.r R/count_reads.r R/dim.r R/get_nucleosome_diff.r R/globals.r R/ncol.r R/read_aggregated_vplot.r R/read_bam.r R/read_fragment_size_profile.r R/read_vplot.r R/resize.r R/results.r R/scale01.r R/scheduler.r R/seatac.r R/show.r R/slidingWindows.r R/subsetting.r R/utils.r R/vae.r R/validate_bam.r R/vplot.r README.md man/Model-class.Rd man/VaeModel-class.Rd man/VaeModel.Rd man/Vplots-class.Rd man/VplotsList-class.Rd man/WarmUpAndCosineDecay.Rd man/add_genomic_features-Vplots-GRanges-method.Rd man/add_genomic_features-Vplots-GRangesList-method.Rd man/add_genomic_features.Rd man/beta_schedule.Rd man/block_center.Rd man/cbind-Vplots-method.Rd man/count_reads-GRanges-character-BSgenome-method.Rd man/count_reads-GRangesList-character-BSgenome-method.Rd man/count_reads.Rd man/count_reads_core.Rd man/cut_data.Rd man/dim-Vplots-method.Rd man/downsample_vplot.Rd man/fit-VaeModel-Vplots-method.Rd man/fit-VaeModel-VplotsList-method.Rd man/fit-VaeModel-list-method.Rd man/fit-VaeModel-tf_dataset-method.Rd man/fit.Rd man/get_fragment_size_per_batch.Rd man/get_nucleosome_diff.Rd man/get_nucleosome_score.Rd man/kernel_smoothing_1d.Rd man/load_model-VaeModel-method.Rd man/load_model.Rd man/ncol-Vplots-method.Rd man/predict-VaeModel-Vplots-method.Rd man/predict-VaeModel-VplotsList-method.Rd man/predict.Rd man/predict_fragment_size-VaeModel-Vplots-method.Rd man/predict_fragment_size.Rd man/predict_vplots.Rd man/prepare_data-VaeModel-Vplots-method.Rd man/prepare_data-VaeModel-VplotsList-method.Rd man/prepare_data.Rd man/read_aggregated_vplot-GRangesList-character-BSgenome-method.Rd man/read_aggregated_vplot.Rd man/read_bam-character-GRanges-BSgenome-method.Rd man/read_bam-character-missing-BSgenome-method.Rd man/read_bam.Rd man/read_fragment_size_profile-GRanges-character-BSgenome-method.Rd man/read_fragment_size_profile-missing-character-BSgenome-method.Rd man/read_fragment_size_profile.Rd man/read_vplot-GRanges-character-BSgenome-method.Rd man/read_vplot-GRangesList-character-BSgenome-method.Rd man/read_vplot.Rd man/read_vplot_core.Rd man/resize-Vplots-method.Rd man/results-VaeModel-Vplots-method.Rd man/results.Rd man/results_nucleosome.Rd man/results_phase.Rd man/results_vplots.Rd man/scale01-dgCMatrix-method.Rd man/scale01-matrix-method.Rd man/scale01-numeric-method.Rd man/scale01-tensorflow.tensor-method.Rd man/scale01.Rd man/scale_vplot.Rd man/seatac.Rd man/show-Vplots-method.Rd man/show-VplotsList-method.Rd man/slidingWindows-Vplots-method.Rd man/split_dataset.Rd man/standarize_1d.Rd man/sub-Vplots-ANY-ANY-ANY-method.Rd man/subset-Vplots-ANY-ANY-Vplots-method.Rd man/until_out_of_range2.Rd man/validate-VaeModel-Vplots-method.Rd man/validate-VaeModel-VplotsList-method.Rd man/validate.Rd man/validate_bam.Rd man/vplot-Vplots-method.Rd man/vplot.Rd man/vplot_core.Rd