NGPhylogeny.fr

MrBayes 3.2.7_0

Nexus/Fasta/Phylip input file

Number of generations

Number of chains

Number of runs

Outgroup

The name or number identifying one taxon from the data.

Choose model

Models are defined below and are only valid for nucleotide data.

Choose rates

Sample frequency

Frequency with which output it written to files.

Print frequency

Frequency with which output is printed to the screen.

Burn-in fraction

Fraction of samples to discard when summarizing.

Stop rule?

Sumarize parameters

Summarizes sampled parameter value.

Sumarize trees

Summarizes the trees.

Include plot?

Creates an x-y graph of the parameter over the course of the chain.

Checkpoint frequency

Frequency with which checkpoints are written. Used for continuing analysis with append.

Append to last checkpoint?

Requires .ckp file (i.e. that number of generations > checkpoint frequency for previous analysis).

Seed

Specify a seed with which to run the job.

Swap Seed

Specify a swap seed with which to run the job.