<![CDATA[BOL: CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes]]> https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes? https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes Wed, 23 May 2018 04:39:26 -0500 https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes <![CDATA[CheckM:Assessing the quality of microbial genomes recovered from isolates, single cells, and metagenomes]]> CheckM provides a set of tools for assessing the quality of genomes recovered from isolates, single cells, or metagenomes. It provides robust estimates of genome completeness and contamination by using collocated sets of genes that are ubiquitous and single-copy within a phylogenetic lineage. Assessment of genome quality can also be examined using plots depicting key genomic characteristics (e.g., GC, coding density) which highlight sequences outside the expected distributions of a typical genome. CheckM also provides tools for identifying genome bins that are likely candidates for merging based on marker set compatibility, similarity in genomic characteristics, and proximity within a reference genome tree.

Address of the bookmark: http://ecogenomics.github.io/CheckM/

]]> Rahul Nayak https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes#item-annotation-4042 Mon, 08 Aug 2022 23:56:27 -0500 https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes#item-annotation-4042 <![CDATA[Comment by Neel]]> MOre at https://bitbucket.org/berkeleylab/checkv/src/master/

]]> Neel https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes#item-annotation-4041 Mon, 08 Aug 2022 19:22:26 -0500 https://bioinformaticsonline.com/bookmarks/view/36736/checkmassessing-the-quality-of-microbial-genomes-recovered-from-isolates-single-cells-and-metagenomes#item-annotation-4041 <![CDATA[Comment by Neel]]> CheckM for Metagenome https://linsalrob.github.io/ComputationalGenomicsManual/CheckM/

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