sr320
commented
6 years ago Can you provide an example where you show all transition plots for single protein? On Thu, Oct 26, 2017 at 6:42 PM Yaamini Venkataraman < notifications@github.com> wrote:
Assigned #35 https://github.com/RobertsLab/project-oyster-oa/issues/35 to @sr320 https://github.com/sr320.
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yaaminiv
emmats
For each pair of technical replicates, I removed any transitions that had a coefficient of variation greater than a certain thresh.old (from Steven's suggestion in #18). I used three different thresholds: CV>20, CV>15, CV>10. I reexamined my technical replication, my NMDS for samples/eelgrass, and my ANOSIMs. I also made box plots for each transition, using just sites and both sites and eelgrass conditions. All of my notebooks can be found here:
CV > 20 filtering results CV > 15 and CV > 10 filtering results Boxplots
As I mention in my box plot notebook entry, my biggest concern now is the fact that we selected individual transition data to remove for each technical replicate, as opposed to removing a transition completely from the analysis. So some transitions have a much larger dataset than others. How can I account for these irregularities moving forward? I'm assuming my next step is to also examine the boxplots and quantify how similar/different my median/mean values are (i.e. t-tests or ANOVAs).
Thoughts/suggestions?