This is the code repository for the paper "Evaluating nanopore sequencing data processing pipelines for structure variation identification".
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scripts/download.sh: code for downloading the online data
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scripts/simulation.sh: code for genreating simulation datasets
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scripts/workflow.sh: code for running the aligners and SV callers
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scripts/integration.sh: code for consensus call set generation
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scripts/comparison.md: code for call set and true set comparisons
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scripts/coverage.sh: code for subsetting the reads and coverages analysis
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scripts/ML/gen_label.sh: code for generating labels for the random forest classifier
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scripts/ML/random_forest.py: code for the random forest classifier training, predicting, and evaluating