Sam Moran

10 Questions 4 Answers 0 Followers

Questions related from Sam Moran

For a PGLS analysis in Compare 4.6, can anyone propose sources of error or solutions for the following problems?

I am using Compare 4.6 software to perform PGLS on a large set of trait values using a known phylogeny (based on genetic distance; Taxa = 23, Traits = 110, phylogeny = 1). The problem is that when...

04 April 2015 891 1 View

How does one interpret the output from a 'PGLS-Relationships' analysis in Compare 4.6b?

The output includes results for PGLS at a given alpha value, Felsenstein's independent contrasts and TIPS (where phylogeny is not accounted for). In my case, mean PGLS carries high alpha values...

04 April 2015 3,371 0 View

RAPD PCR: does every sample require a technical replicate or will a subset suffice?

In the interests of conserving time and resources, I would like to avoid performing replicates on every single sample, unless this is absolutely necessary. I have read in the literature that 5-10%...

08 August 2014 6,849 4 View

What statistical methods can be used to determine reproducibility between more than two groups of replicate samples?

I am analysing data obtained from experiments conducted on a group of 10 individuals in triplicate. In each replicate, the number of data points are not necessarily the same for each of the...

12 December 2013 2,734 4 View

Can you re-position a DNA ladder in a gel picture (you plan to publish) using image editing methods?

I am thinking about publishing work based on RAPD PCR. The problem I am having is that my gel pictures consist of several different experiments/primers (represented by 10 samples each) beside a...

08 August 2013 5,371 5 View

Could anyone give an example of AFLP presence/absence data written in Genepop format?

I have seen examples of the Genepop format, but never for dominant markers. Could anyone, additionally, provide a clear explanation of the format's characteristics?

09 September 2012 7,856 0 View

Can anyone provide an example of an input file for the program DfDist (Beaumont, 2008)?

The program detects loci influenced by selection by comparing their Fst values to a neutral simulation.

09 September 2012 3,110 2 View

In what format should AFLP data be submitted to software used for detecting selection?

I am aware that the detection is based on Fst values. However, should these be obtained using another program and then be transferred to DfDist, Bayescan etc. or should AFLP binary data be used...

09 September 2012 3,297 0 View

In preliminary screening of AFLP primer combinations to determine pairs which give optimal results, how many individuals should be screened?

Is this randomly decided by the researcher or is there a general principle they can base their decision on? I have read many papers looking for an answer but have yet to find an explanation on...

08 August 2012 3,399 7 View

What would be an adequate sample number for preliminary screening of AFLP primer pairs?

I want to make an accurate determination of the best primer pairs to use in a full-scale analysis but I don't want to use any more time or resources than I need to on a preliminary screening. I...

08 August 2012 1,885 3 View