Does anyone knows software to do epistasis analysis for pairwise interactions between two sets of snps?

I need to do epistasis analysis between two sets of SNPs (each contains ~1000 SNPs). I am interested in pairwise interactions between the SNPs on different sets and not between SNPs on same set. I...

08 September 2015 2,648 2 View

Does visualising your continuous data using bar graph makes any sense?

03 April 2015 1,401 11 View

Which allele should be used as a reference if the major allele is not the ancestral allele?

11 December 2014 8,472 4 View

Does anyone know any software or R package to visualize SNPs on chromosomes?

Recently I was trying to visualize the GWAS significant SNPs on chromosome to get a global view and to look for any clustering of significant SNPs in any region of chromosome. I found a software...

11 December 2014 4,661 6 View

How do you know if the SNP is situated in an miRNA coding sequence?

Is there a way to find out if a SNP is located in an miRNA coding region? For example, if I have a list of SNPs, is it possible to find out how many of my SNPs are located in an miRNA coding...

11 December 2014 7,455 8 View

What is the maximum length of upstream promoter sequence of genes in homosapiens?

11 December 2014 8,560 6 View

Regression between a continuous outcome and a categorical (ordinal) predictor ?

Here the outcome variable is continuous and bi-modally distributed with clustering at the both extreme ends of histogram. The predictor is a categorical variable which has three categories such as...

10 November 2014 3,749 5 View

How can I create a UCSC BED file from plink data?

I know that the bed file (Binary ped) of plink is different from UCSC's bed file. I would like to create a bed file of genomic co-ordinates of all the SNPs in plink data. Can any one help me with...

06 July 2014 1,341 8 View

How to deal with data with double the number of cases than controls?

Lets say I am analyzing a genetic polymorphism data where I have genotyped 120 cases and 50 controls. I guess it is not statistically right to compare a larger number of cases to fewer controls as...

05 June 2014 9,106 8 View

How to calclulate sample size for studying epistasis between two SNPs ?

Can anyone suggest a method to calculate a sample size to study an effect of epistasis between two polymorphisms over a clinical phenotype (ex: drug response). Suggestion of any reference will be...

05 June 2014 4,741 2 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

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

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

Which is suitable for use with Python? MySQL or SQL Server?

Which is suitable for use with Python? MySQL or SQL Server? What is your suggestion?

01 March 2021 3,422 3 View

How to eliminate Steady state error from Reinforcement learning genetic algorithm code?

The following code (see 1st 2 images attached) is used to produce PID controller values that are designed to control the system (G). The code finds the PID controller values (noted as k) by using...

28 February 2021 6,560 14 View

VIF very high, but correlation is low and coefficient is significant. Which one whould I choose?

Hello. I have a question whether if my coefficients (statistically significant) would be valid when VIFs are really high. In my model, there are independent variables(IV), moderating variables...

26 February 2021 956 13 View

How to plot the probability paper of Gumbel distribution using R programing?

In R-studio, there are many commands of Gumbel package. Arguments are also different. I`m asking about the alpha parameter of the Copula which must be greater than 1. If this is the one used to...

25 February 2021 5,229 3 View

Data Analysis K-S and S-W tests?

Hello, I have conducted analysis where the K-W and S-W have come out as p

25 February 2021 9,648 3 View

Statistics: include groups of respondents made by one person for analysis?

Good morning, I could not find literature about this so I am asking. I am organizing data for a questionnaire (N=100) that foresees some personal questions like level of education. For the aim...

25 February 2021 2,090 4 View

How to model Supercritical water gasification (SCWG) process in Homer software?

Hi everyone How to model Supercritical water gasification (SCWG) process in Homer software?

25 February 2021 4,075 1 View