Scott V. Edwards
Scott V. Edwards
Thanks very much, David, this is really helpful. And before I forget, happy new year! This will help me put all the scaffolds on a common numerical scale. What I'd...
Wow, David, thanks so much. I have really learned alot in this thread and I appreciate your taking the time to help me get around this snag. The result looks...
Just to clarify, here I used a single peak model: model = list( y ~ 1, 1 ~ 1, 1 ~ 1 ) I realize I can set a strict...
Another possibility is to tabulate frameshifts and other alignment errors as you describe in the compleasm paper. Would I do this using the analyze submodule of compleasm? This raises a...
Great, thanks so much. And apologies for putting two separate questions in one issue :). For the first question on alignments, this is helpful. I can get the assembly translation...
Thank you Neng. This is all extremely helpful! Of course, I should have thought to load the miniprot gff into IGV. And the script ran perfectly and the output is...
Thanks very much Daniel for responding! I think the main reason to have non-overlapping bed files might be if one were trying to estimate how much of a scaffold is...
Great, thanks Daniel - very helpful (and no rush!)
Thank you Fritz, this is very helpful. If I may, I have another related question. We are looking at trios (of birds!). We used this script to generate the joint...
Great, thanks very much for the tip! We will continue to investigate. - Scott