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CheckM provides a set of tools for assessing the quality of genomes |
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CheckM provides a set of tools for assessing the quality of genomes recovered |
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recovered from isolates, single cells, or metagenomes. |
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from isolates, single cells, or metagenomes. |
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It provides robust estimates of genome completeness and contamination |
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by using collocated sets of genes that are ubiquitous and single-copy |
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It provides robust estimates of genome completeness and contamination by using |
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within a phylogenetic lineage. |
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collocated sets of genes that are ubiquitous and single-copy within a |
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Assessment of genome quality can also be examined using plots depicting |
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phylogenetic lineage. |
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key genomic characteristics (e.g., GC, coding density) which highlight |
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sequences outside the expected distributions of a typical genome. |
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Assessment of genome quality can also be examined using plots depicting key |
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CheckM also provides tools for identifying genome bins that are likely |
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genomic characteristics (e.g., GC, coding density) which highlight sequences |
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candidates for merging based on marker set compatibility, similarity in |
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outside the expected distributions of a typical genome. CheckM also provides |
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genomic characteristics, and proximity within a reference genome tree. |
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tools for identifying genome bins that are likely candidates for merging based |
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on marker set compatibility, similarity in genomic characteristics, and |
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proximity within a reference genome tree. |
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