The study of the collection, analysis, and interpretation of data.

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3
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2answers
43 views

Different Effects of Detection Probability Between Presence and Count Data at the Same Location

I'm modeling habitat suitability for a large, mobile animal using occurrence data (presence only - I have no true absence data in this case) collected from camera traps (stations with automatic ...
0
votes
1answer
24 views

Get Parent GO terms of GO term vector?

I have a vector of GOIDs that are specific GO IDs outputted from an enrichment analysis. I want to cluster my GOIDs by their parent GOID term. I used GOstats to do my enrichment analysis, and I have ...
5
votes
0answers
73 views

Understanding F-statistics in population genetics

I am reading a classical Weir and Cockerham 1984 paper about Fst estimation. At the beginning (first page, right column), they define 3 statistics. $F$ is the correlation of genes within individuals ...
3
votes
0answers
21 views

What techniques can be used to link environmental conditions to crop yield?

Im interested in how we can determine what are the optimal conditions for crops and how deviations from these optimal conditions affect yield. In the literature I have found two main approaches and I ...
3
votes
0answers
2k views

What are the factors to consider when determining the sample size for a given study?

Say I'm designing a retrospective study (where I'd collect data from various schools for the last 5 years) to see if consuming milk can contribute to childhood obesity. How do I decide on how many ...
2
votes
0answers
77 views

Efficient algorithm to calculate various population divergence statistics

Intro and description of the data I am simulating the evolution of very long DNA sequences. The model works well, is performant and will output data in the following kind of fasta format ...
1
vote
0answers
41 views

How can I calculate Shannon-Wiener diversity index in caves with different kind of habitats and different sampling methods?

I would like to start a monitoring in different caves, compare caves of different age and length, and find out if there are any correlations between these factors and their diversity. I was thinking ...
1
vote
0answers
15 views

What is the best test for SNV clustering?

I am looking for a method to cluster single nucleotide polymorphisms based on clinicopathologic data (mainly receptor immunoistochemistry). So far, I've came up with only two that handle dummy ...
1
vote
0answers
31 views

How should one interpret heritability? Is it related to $R^2$?

From Wiki: Heritability estimates are often misinterpreted if it is not understood that they refer to the proportion of variation between individuals on a trait that is due to genetic factors. It ...
1
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0answers
19 views

How to study the number of herbivores per type of tree and time of day?

Suppose I want to find out the number of herbivores in different kinds of trees, and also compare the numbers between day and night. How would this kind of study be run in practice? It easy to think ...
1
vote
0answers
52 views

Cigarette consumption dose-response function WRT health outcomes

I'm curious how health risks (mortality, lifetime probability of cancer, etc) change with cigarette consumption. Specifically, treatring cigarette consumption like a continuous variable, rather than ...
1
vote
0answers
64 views

“Gold standard” for CNV detection methods?

Is there a generally accepted "gold standard" for testing the performance of CNV detection methods? I'm interested both in learning about existing datasets that may serve as gold standards for CNV ...
0
votes
0answers
36 views

Large set of semen microscope images needed

As a course project I have to write an algorithm whose purpose is to analyze a sperm sample (total number, motility etc). In order to do that though, I need to have a sufficient number of images to ...
0
votes
0answers
13 views

What is the best aCGH normalization procedure for hyper-ploid tumor samples?

I'm currently working on aCGH data of Triple Negative Breast Cancer patients xenografts and primary tumor samples. A substantial amount of my samples is highly aberrated which leads to offsets of the ...
0
votes
0answers
25 views

Does anyone use bootstrapping to report mass gain during experiment?

When performing an experiment to report gain of body mass in an experiment, do any of you know of a paper whose authors have used a bootstrap to improve their confidence intervals? I have a n = 10 ...