v2.2.1

There is now background read correction available for the StrainR command, which is accessible through -b1 and -b2. These options allow the user to supply background reads which they wish not to be included in the final analysis. This is not a typical use-case.

For example, one could have an defined synthetic community with a background of an undefined community. To find the abundance of the defined community, supply reads as normal but also separately include background reads of just the undefined community to the -b1 and -b2 options. (e.g. the background reads could be day 0 of a mouse experiment before inoculation of a defined community.)