├── LICENSE ├── README.md ├── UMIC-seq.py ├── UMIC-seq.yml ├── UMIC-seq_helper.py ├── example ├── 100x50_ul50_acc0.90_1_n10_simulatedUMIs_threshapprox.png ├── barcodes.fasta ├── example_clusterreads.fastq.gz ├── examples_readme.txt ├── fullBC01_similarityscores_hist.png ├── fullBC01_thresholdapproximation.png ├── nanopolish_arguments.txt ├── probe.fasta ├── randomsample_clustersizes_sequences.png ├── randomsample_similarityscores_hist.png ├── randomsample_thresholdapproximation.png └── reference.fasta └── figures ├── Fig. 3 ├── Fig3-tSNE.py ├── Zurek_Supplementary_Data.csv ├── tSNE_by-founder.png ├── tSNE_by-round.png └── tSNE_coordinates.npy └── SuppFig1 ├── SuppFig1A.png ├── SuppFig1B.png ├── clusterefficiency_UMI-length-errorrate.csv ├── clusterefficiency_library-sizes_MMseqs2.csv ├── clusterefficiency_library-sizes_UMIC-seq.csv ├── plot_simulations.py ├── simulate_UMI-length-errorrate.py └── simulate_library-sizes.py /LICENSE: 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