How to extract the pairwise FST information from an Arlequin AMOVA and make a graph

  Рет қаралды 9,189

Josh Banta

Josh Banta

Күн бұрын

Пікірлер: 9
@muhammadnoorullah9554
@muhammadnoorullah9554 Жыл бұрын
Understood perfectly... i looked everywhere but the complex language was too much for me. thank you
@anaperera9057
@anaperera9057 3 жыл бұрын
Many thanks for such clear and simple tutorials!
@bttran5469
@bttran5469 3 жыл бұрын
Dear Dr. Banta, I would love to express all of my appreciation for your great work. Hope you keep up with your things (especially, in relate population genetics). I am looking forward to your upcoming video. Thank you!
@neimsemman8470
@neimsemman8470 Жыл бұрын
Crucial and influential person. wish you long live
@anguslawrie9640
@anguslawrie9640 2 жыл бұрын
Extremely helpful. Thank you.
@elisaproietti1506
@elisaproietti1506 11 ай бұрын
Dear Dr. Banta, thank you for this clear and useful tutorial. I have a question about the negative values in the heatmap. Why I have negative values in the graph even if I convert them to 0 (arq_fstmat_mt[arq_fstmat_mt
@khuramrazzaq2388
@khuramrazzaq2388 Жыл бұрын
great. If a gene is heterozygous, how do you deal with it during Arlequin-ready file preparation?
@mwanganamubita9617
@mwanganamubita9617 2 жыл бұрын
Dear Dr. Banta, First, thanks for very informative tutorials. I would like to extract pairwise FST information in a graphical format for only two populations. Apart from changing line 42 to arq_fstmat_mt[<a href="#" class="seekto" data-time="62">1:2</a>,<a href="#" class="seekto" data-time="62">1:2</a>] and changing the name of the XML file in line 16, what other changes should I make to the R script so that I do not get the following warning messages ?: 1. Warning message: In (function (..., deparse.level = 1) : number of columns of result is not a multiple of vector length (arg 2) 2. Warning messages: 1: In text.default(pos.xlabel[, 1], pos.xlabel[, 2], newcolnames, srt = tl.srt, : "cl.lim" is not a graphical parameter 2: In text.default(pos.ylabel[, 1], pos.ylabel[, 2], newrownames, col = tl.col, : "cl.lim" is not a graphical parameter 3: In title(title, ...) : "cl.lim" is not a graphical parameter 3. Warning message: In (function (..., deparse.level = 1) : number of columns of result is not a multiple of vector length (arg 1) 4. Warning messages: 1: In text.default(pos.xlabel[, 1], pos.xlabel[, 2], newcolnames, srt = tl.srt, : "cl.lim" is not a graphical parameter 2: In text.default(pos.ylabel[, 1], pos.ylabel[, 2], newrownames, col = tl.col, : "cl.lim" is not a graphical parameter 3: In title(title, ...) : "cl.lim" is not a graphical parameter
@quinncarvey1160
@quinncarvey1160 Жыл бұрын
I ran into this same problem but added 'is.corr=FALSE' to corrplot code and then it worked. I checked the matrix we made to verify the values in the corrplot made sense.
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