Default SingleM reference "metapackage" data

SingleM is a tool for profiling shotgun metagenomes. It has a particular strength in detecting microbial lineages which are not in reference databases. The method it uses also makes it suitable for some related tasks, such as assessing eukaryotic contamination, finding bias in genome recovery, computing ecological diversity metrics, and lineage-targeted MAG recovery.

The data here is the singlem "metapackage" which is the reference package to be used with SingleM in e.g. "pipe" mode. https://github.com/wwood/singlem.

The newest version is built from Genome Taxonomy Database (GTDB) version 09-RS220, but older versions are available in the history of this record.

= Changelog =

version 4.3.0

* Updated to GTDB 09-RS220.

version 4.2.2

* Fxied name of .zb folder to be correct version

version 4.2.1

* Changed name of .zb folder to be standard

version 4.2.0

* Updated GTDB 08-RS214 package to metapackage version 5, and smafa database version 2.

version 4.1.0

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2 (this is the same as version 3.1.2, but with an updated version number).

version 3.2.1

* Updated genome sizes for GTDB genomes (for use with `read_fraction`) corrected based on CheckM v2 estimates of completeness and contamination.

version 3.2.0

* Updated to GTDB 08-RS214.

version 3.1.2

* Updated GTDB 07-RS207 package to metapackage version 5, and smafa database version 2.