How do I extract studentized conditional residual from lmer in R?

A linear mixed model was fitted using lmer function of lme4 package in R. Does anyone have idea of how to extract studentized conditional residual for individual data point?

31 December 2019 2,037 3 View

How to resolve Non convergence problem in fitting Unstructured and Factor analytic variance-covariance model using ASREML-R?

Dear All, I am using ASREML-R to fit unstructured (UN) and factor analytic (FA) model to explore complex structure of genotype by environment interaction in multienvironment yield data. There are...

10 November 2019 634 4 View

How do I filter for genotype quality and depth using vcftools for sequence data?

I need to filter a vcf file for genotype quality and depth. How do I choose my filter parameter value? vcftools --gzvcf snps.txt.gz --quality ?? --depth ?? --recode --recode-INFO-all --out...

10 November 2018 3,165 0 View

Filter out genetic marker with Minor Allele Frequency?

A genotype data for Genome Wide Association Analysis (GWAS) is provided as 0, 1, and 2 format where individuals along the row and each column is a SNP. The minor allele frequency (MAF) is...

03 April 2018 9,562 3 View

What is appropriate statistic for correlation between ordinal and nominal variables?

04 May 2016 2,983 2 View

Correlation and PCA analysis on replicate or average value from RCBD?

04 May 2016 2,496 3 View

How can I calculate point density in interpolation grid?

A GSTAT library of R was used to generate a grid size of (i) 10 x 10 m and (ii) 10 x 5 m running from an Easting of 299677 m to 301297 m and a Northing of 5737278 m to 5738128 m. This resulted in...

10 November 2014 328 6 View

What to do when getting a warning message from a cross validation linear variogram model?

The four variogram models below are fitted to the same dataset. I got a warning message while cross validating a fitted linear variogram model as Warning message: In sqrt(ret[[var.name]]) : NaNs...

03 April 2014 5,574 2 View

How can I obtain a standard error of variogram parameters estimate from a gstat package?

A number of variogram models were fitted where estimates like nugget, range, and sill were obtained from gstat of R. Could anyone guide me on how to obtain standard error for each of these...

03 April 2014 7,043 2 View

How do I figure out the parameter estimate of a matern and exponential variogram model?

I used gstat to fit a Matern variogram model to my crop yield by setting the kappa = 0.5. To my surprise, its parameter estimates are exactly the same with that of exponential. Does it mean that...

03 April 2014 7,319 3 View

How to compare two groups with only two measurements?

Hiiiii everyone! I have an enquiry on statistical analysis. I was looking for many forum and it's still cannot solve my problem. I want to compare means of two groups of data but only with two...

03 March 2021 8,796 3 View

Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence?

I am on the lookout for the Enhanced Yellow Fluorescent Protein (Aequorea victoria) DNA sequence. Does anyone know where I can find it? Thank you in advance

03 March 2021 3,568 1 View

What kind of fluid could I use for a pitfall trap that also does not invalidate molecular testing?

Hi, I want to start testing pitfall trap to obtain ants samples, but I need to conduct molecular analysis on those insects. So, what kind of fluid can I use? Ethanol expires too early and I need...

03 March 2021 5,978 5 View

What's the best way to measure growth rates in House sparrow chicks from day 2 to day 10?

What's the best way to measure growth rates in House sparrow chicks from day 2 to day 10? Since, the growth curve from day 2 to 10 won't be like the "Logistic curve" it might not follow logistic...

03 March 2021 1,401 3 View

Do we need to write protocol for a second study of a systematic review that has been registered and published?

I have conducted and published a systematic review and meta-analysis research with the topic related to public health and health pomotion (protocol was registed in PROSPERO). Now we want to...

03 March 2021 8,920 3 View

How to increase a model accuracy ?

dear community, my model is based feature extraction from non stationary signals using discrete Wavelet Transform and then using statistical features then machine learning classifiers in order to...

03 March 2021 6,994 5 View

1. What is the impact of having different scales in a survey? and how can we solve this problem before and after data collection (Literature)?

1. What is the impact of having different scales in a survey? and how can we solve this problem before and after data collection (Literature-based reflection)? Thank you for your time and for...

03 March 2021 2,870 3 View

What degree of missing data in a particular case/participant results in Expectation-Maximisation no longer working?

I'm dealing with a mediation model and am using the PROCESS module in SPSS. Due to SPSS and PROCESS being limited in the imputation methods - being unable to handle multiple imputation - the other...

02 March 2021 4,362 1 View

Do I need to do linear regression before running mediation analysis using PROCESS MACRO by Hayes ?

I just wanted to check if I need to run a linear regression separately if I am using PROCESS MACRO to run mediation analysis. Thank you.

02 March 2021 4,359 3 View

How to normalise data on OPM package from R Studio ?

Good afternoon, I recently used OmniLog from BIOLOG for my experimentations : I tested the metabolism of different strains on 2 types of plates. I have 16 strains of 3 different groups...

02 March 2021 3,584 1 View