Wouter De Coster

Writing reference index to directory without writing permission: segmentation fault

3

Hi, It took me a while before I realised what the issue was, but when ngmlr tries to write the index ("Writing encoded reference to ...") to a directory to...

SURVIVOR stats with compressed file

1

Hi Fritz, I'm not sure bgzipped compressed files (or compressed files at all) are supported, but at least no error is raised. When I run `SURVIVOR stats test.vcf.gz 30 -1...

phased alleles are switched?

4

Hi, I have used longshot for phasing reads (HP & PS tags), but something weird is happening. The genotypes (0|1, 1|0) are switched around in comparison with what I see...

Hi, When merging snf files to a multisample VCF I found the following error on stderr: ``` Sniffles2 Error: SNF format version for sample.snf is not supported (Fatal error, exiting.)...

I'm working on nanopore data, which contains many small indels which are just meaningless noise. It would be nice if I can distinguish those small insertions from bigger insertions. IGV...

Thanks for the great resource. My understanding of statistics is poor, so this document is really helpful. What would help me a lot is if every test would have a...

Cannot convert non-finite values (NA or inf) to integer

3

I'm trying to convert a pandas DataFrame to a pyranges object and get the following error: ```gr = pr.PyRanges(df) --------------------------------------------------------------------------- ValueError Traceback (most recent call last) in () ----> 1...

Documentation questions

9

Hi, If you are like me then you probably don't like writing documentation, or worse, keeping that documentation up to date. But your document is very helpful to get started...

5hmC for PromethION?

3

Hi, Is a model for 5mC and 5hmC (CpG context) calling for PromethION planned or possible to make? Thanks, Wouter