vegan

  1. R

    What GLM family if response is Bray-Curtis dissimilarity? Can I use adonis (vegan)?

    I have some questions about testing for effects of different experimental levels on community similarity. I'll explain my planned experimental design before I ask the questions: I have two methods for sampling species. I will use both of these methods on the same vegetation patch, at 3 points...
  2. T

    Basic Vegan Question. Please Help.

    Hello everyone, I'm an undergraduate thesis student working on analyzing plant data using the vegan package in R. Both my professor and I are beginners to using the program and have run into difficulty with calculating shannon's diversity for all of our sample periods. I'm not sure if this is...
  3. A

    Extract residuals from adonis function in vegan package

    I am using the adonis function in the vegan package to determine effects of different environmental factors in forest plant community composition in different regions. I would like to first use adonis to remove the region effect, this is, to fit a model like adonis_region<- adonis(community ~...
  4. U

    vegan package accumulation curve

    Hi, Any one have any idea about core genomic accumulation curve from the orthomcl output file (if not, I will try to explain the terms)?? My modified (orthomcl) output file looks something like: Gr1 Gr2 Gr3 Gr4 .............. row1 1 1 1 0...
  5. J

    Redundancy Analysis in R

    I do hope this question is not too specific, but reading previous posts I have been very impressed with the knowledge of the responders, and the clarity of their responses, so I hope that someone may be able to help. I am interested in performing a redundancy analysis on some of my data using...