You signed in with another tab or window. Reload to refresh your session.You signed out in another tab or window. Reload to refresh your session.You switched accounts on another tab or window. Reload to refresh your session.Dismiss alert
It might be convenient to have a function that performs a simple plug-in approach to the the 'reference-species' approach to calibration described by https://github.com/mikemc/differential-abundance-theory. In its simplest form, the function simply needs to take an 'observed' matrix and a set of reference measurements for 1 or more species, and it can calibrate all species in observed by multiplying by the geometric mean of the reference measurements divided by the observed measurements for those species. However, since I don't necessarily recommend such a non-statistical approach except for exploration and demonstration, it might be better to instead just make a function that facilitates applying sample-specific normalizations - essentially, an easier to use version of 'sweep()'. This function would allow any type of normalization, including to the total abundance (as in so called 'quantitative microbiome profiling')
The text was updated successfully, but these errors were encountered:
It might be convenient to have a function that performs a simple plug-in approach to the the 'reference-species' approach to calibration described by https://github.com/mikemc/differential-abundance-theory. In its simplest form, the function simply needs to take an 'observed' matrix and a set of reference measurements for 1 or more species, and it can calibrate all species in observed by multiplying by the geometric mean of the reference measurements divided by the observed measurements for those species. However, since I don't necessarily recommend such a non-statistical approach except for exploration and demonstration, it might be better to instead just make a function that facilitates applying sample-specific normalizations - essentially, an easier to use version of 'sweep()'. This function would allow any type of normalization, including to the total abundance (as in so called 'quantitative microbiome profiling')
The text was updated successfully, but these errors were encountered: