Running individual WGCNA analyses on male and female sets of oysters. Initial code can be found here. General notes about first run:
- Using signed networks (those that take into account the direction of expression as well as the value of the count - up or down)
- Blockwise clustering for module formation, usually good for large datasets, probably not necessary since there isn’t too much data
- Current status: Switched from this analysis at module merging stage since none of the modules merged with a stringent similarity setting
Male modules and clustering:
Female modules and clustering:
Attempt at merging, showing males only in this case. Module similarity did not meet threshold to merge any of the many modules:
Paused this to attempt Ariana’s methodology which has more stringent filtering steps.