Tools to calculate binned Dxy?

Question

[ggman]

Hi all,

Are there any tools that can calculate binned Dxy? I have found some that are capable of calculating per site Dxy, such as ANGSD. Any suggestions would be appreciated.

An offshoot of this question - what's the best way to stay informed about latest developments in genomic analysis tools?

Best,

GG

[zx8754]

Regarding "staying informed", follow Stephen Turner:

• http://www.gettinggeneticsdone.com/2017/02/staying-current-in-bioinformatics-genomics-2017.html

[ggman]

Thanks, much appreciated!

[h.mon]

what's the best way to stay informed about latest developments in genomic analysis tools?

Follow blogs, follow the BioStars "Tools" section, peruse the Bioinformatics section from BioRxiv.

There are some twitter bots which shout out about bioinfo tools, but I don't follow those - some people do and find them useful.

What do you mean by "binned Dxy"? Dxy over fixed-size windows?

[ggman]

Yes, fixed-window sizes.

[h.mon]

Maybe this tutorial may be of help:

A tutorial for some basic analyses using ngsTools/ANGSD

[ggman]

Right, those take calculate it per site as opposed to fixed windows.

[h.mon]

There are some sliding-window sections, doesn't they help?

[ggman]

I think those are only for Fst and Pi, unless if I am misreading them.

[axelwilhelm]

Here is the answer A: Sliding window analysis for angsd output