Feng Xu

"pybedtools coverage -f" don't work properly

1

Hi, I am using pybedtools (0.8.1) coverage to count the features spanning the interval, and I want to filter the features whose overlap don't satisfy the fraction required for A...

Some questions about call_variant in isoPhase

11

Hi Liz, I'm using isoPhase to assign haplotypes to isoforms, but I have some questions in reading your source code. Here https://github.com/Magdoll/cDNA_Cupcake/blob/master/phasing/io/MPileUpVariantCaller.py#L135, you used Fisher-exact test to calculate pvalue, but...

How to set the custom residues label in the bottom right corner of the panel when hovering over them

3

Hello, I am currently working on visualizing PDB files that have been scored in the B-factor column by other tools. While AlphaFold2 provides CIF files and PDB files for predicted...

A tutorial for the prediction of domain family by local structure similarity

3

Hi, thanks for developing foldseek which greatly facilitates our scientific research work. ## Expected Behavior I am trying to **predict domain family using local structure similarity** mentioned in your [article](https://www.nature.com/articles/s41586-023-06510-w#Sec9),...