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

03 April 2015 3,286 0 View

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...

03 April 2015 845 1 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%...

07 August 2014 6,800 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...

11 December 2013 2,693 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...

07 August 2013 5,266 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?

08 September 2012 7,811 0 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...

08 September 2012 3,245 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...

07 August 2012 3,348 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...

07 August 2012 1,838 3 View

Shall I skip the measurement model in SmartPLS?

Hello everyone, I had run a mediation model in SmartPLS using questionnaires that were already validated among my statistical population. A professor who edited my paper -though she is not...

01 March 2021 3,052 3 View

What is the difference between genotype and haplotype data in the ped format?

Hi everybody In the ped format for genotype, alleles of any SNP are represented by two columns (one for each allele, separated by a space). Is a column sufficient for the haplotype to...

27 February 2021 1,965 1 View

Are there any databases for gene co-expression or expression pattern clustering?

I am currently working on gene clustering based on co-expression pattern in mouse brain. The problem is I do not have some solid way to test my result. Are there any suggestions for databases...

22 February 2021 4,374 3 View

How we can measure Kemp % in wool without using of benzene?

Would you please let me to know about the methods for measurement of medullation and Kemp % on animal? My problem is that the wool sampling and sending to laboratory is not possible. So I would...

21 February 2021 7,260 4 View

Useful architecture for bioinformatics?

Hi Dear researchers In ensemble-based architectural design Which algorithms are more useful for classification? What is the difference between parallel and ensemble architecture? Thanks I am...

08 February 2021 2,727 5 View

Electron density difference maps(Fo-Fc): what is the meaning of negative densities (red blobs)?

Dear community, As far as I understand, negative density features point at stuff that is in the model, but not supported by experimental data. However, in many cases (e.g. attached image), when...

06 February 2021 2,847 2 View

Statistical methods for comparing gene expression curves?

Hi all, I have generated two gene expression curves by measuring bioluminescence every 10 mins for 12 hrs. These curves tend to overlap at at some time points, while a difference can be seen at...

02 February 2021 2,613 7 View

Help needed: How to map AA, AG, and GG genotypes on to polymorphism information?

Dear Colleagues, I am new to genes and genotyping and I need help. I am trying to figure our how AA, AG, and GG genotypes map on to A1 for DRD2/ANKK1 Taq1A polymorphism(rs1800497) and Val or MET...

02 February 2021 3,861 3 View

How do you annotate figures to show significance?

30 January 2021 1,008 3 View

Qiime2- No reads passed the filter. How to set the trunc value?

Hi, I am working on some 16S sequencing data, and seems some of them are low quality. I am not sure how to set the trunc value in dada2. qiime dada2 denoise-paired \ --i-demultiplexed-seqs...

30 January 2021 6,213 3 View