checkm
Assess the quality of putative genome bins
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.
- Versions: 1.1.3
- Website: https://ecogenomics.github.io/CheckM/
- Licenses: GPL 3+
- Package source: gnu/packages/bioinformatics.scm
- Builds: See build status
- Issues: See known issues
Installation
Install the latest version of checkm as follows:
guix install checkm
Or install a particular version:
guix install checkm@1.1.3
You can also install packages in augmented, pure or containerized environments for development or simply to try them out without polluting your user profile. See the guix shell documentation for more information.
Badge code
You can use the following badge to inform users of checkm about the latest version available in Guix.
Example HTML:
<a href='https://packages.guix.gnu.org/packages/checkm'><img src='https://packages.guix.gnu.org/packages/checkm/badges/latest-version.svg' alt='Version in GNU Guix'></a>
Example Markdown:
[](https://packages.guix.gnu.org/packages/checkm)
Example Org:
[[https://packages.guix.gnu.org/packages/checkm][https://packages.guix.gnu.org/packages/checkm/badges/latest-version.svg]]