To develop 330_*.Rmd file analysis:
Taxa level LMM
The main purpose of this script is to extract signla from Linear-Mixed-Models(LMM) from longitudinal designs of data. For each Taxa, at a tax_level, we'll run a LMM through the longitudinal dimension and either, rank taxa according to their longitudinal increase/decreas or to the highest differences between a group variable in cat_var.
Try different data transformation approaches:
- Relative abudnaces(RA)
- raw counts, with previous rarefaction at a certain number of reads, using metaphlan_counts object
- clr transformed data for counts, using microbiome::transform()
To develop 330_*.Rmd file analysis:
Taxa level LMM
The main purpose of this script is to extract signla from Linear-Mixed-Models(LMM) from longitudinal designs of data. For each Taxa, at a tax_level, we'll run a LMM through the longitudinal dimension and either, rank taxa according to their longitudinal increase/decreas or to the highest differences between a group variable in cat_var.
Try different data transformation approaches: