Instruct: Identify the main category of Biorxiv papers based on the titles and abstracts
Query: AsmMix: A pipeline for high quality diploid denovo assembly In this paper, we report a pipeline, AsmMix, which is capable of producing both contiguous and high-quality diploid genomes. The pipeline consists of two steps. In the first step, two sets of assemblies are generated: one is based on co-barcoded reads, which are highly accurate and haplotype-resolved but contain many gaps, the other assembly is based on single-molecule sequencing reads, which is contiguous but error-prone. In the second step, those two sets of assemblies are compared and integrated into a haplotype-resolved assembly with fewer errors. We test our pipeline using a dataset of human genome NA24385, perform variant calling from those assemblies and then compare against GIAB Benchmark. We show that AsmMix pipeline could produce highly contiguous, accurate, and haplotype-resolved assemblies. Especially the assembly mixing process could effectively reduce small-scale errors in the long read assembly.
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The categories of this paper are: systems
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The categories of this paper are: genetics
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The categories of this paper are: immunology
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The categories of this paper are: animal
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The categories of this paper are: cognition
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The categories of this paper are: biochemistry
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The categories of this paper are: biology
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The categories of this paper are: bioinformatics
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The categories of this paper are: behavior
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The categories of this paper are: pathology
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The categories of this paper are: scientific
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The categories of this paper are: biophysics
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The categories of this paper are: toxicology
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The categories of this paper are: cancer
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The categories of this paper are: cell
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The categories of this paper are: ecology