Questions tagged [populations]
The populations tag has no usage guidance.
6 questions
1
vote
1
answer
112
views
How to open .weir.fst files witout losing data?
I have .vcf file with over 78 000 variations in 95 experiment subjects. I used vcftools to extract fixation index score for general differentiation between Case and Control groups.
...
2
votes
0
answers
29
views
Calculation of Site Frequency Spectrum (SFS) using STR data
Hi everyone I had a question on if it is possible to calculate (Site Frequency Spectrum)SFS using STR data. Please mention if you know any programm that can be used for that!
I have tried Arlequin but ...
- 59
3
votes
1
answer
41
views
Is there a way I can combine geological data with population genetics data?
So I have ran SAMOVA and made calculations regarding haplotype diversity and nucleotide diversity of several populations. I have also made raster data regarding geographical data like slope, ...
- 329
2
votes
1
answer
90
views
How can I fix "Ill-defined genetic structure" Error message in Arlequin?
I am performing an AMOVA analysis via Arlequin.
At this point, I have:
collected sequences of mtDNA from the cox1 gene,
aligned the different genes using clustalX
converted the files into .arp ...
- 329
1
vote
1
answer
51
views
How can I use sequences with different lengths in arlequin?
I have mtDNA sequences of the cox1 gene from various populations of one species. I want to perform an AMOVA allele frequency analysis via Arlequin. This allele frequency package however requires my ...
- 329
3
votes
2
answers
125
views
How can I resolve "missing name of population" message in PGDSpider?
I want to use Arlequin for AMOVA. I have my FASTA files which I want to convert into .arp files which are recognizable by arlequin. When I try to convert it using Population Genetics Data (format) ...
- 329