Altuna Akalin

Can you please check and close issues if things are fixed ?

This could be due to the potential changes in the dependencies we use to read the files faster. If you send a reproducible example I will take a look On...

> hmm, I've also had such issue in the past, maybe rewriting a function that reads BED files https://github.com/BIMSBbioinfo/genomation/blob/master/R/readData.R#L68 from `readr::read_delim` to e.g. `data.table::fread` could be an option, @al2na what...

then we can change it to fread:) On Wed, Jun 5, 2019 at 7:48 PM katwre wrote: > @al2na ah true! but it looks like fread reads > gzziped files...

Can you send a reproducible example ? On Wed 13. Feb 2019 at 22:08, gladiagit wrote: > The bed file is downloaded from UCSC. A previous version of the package...

Let's keep this issue open for a while. Let's focus on making things work as it is. then we will add more functionality.

underlying issue might have been fixed with newer R versions, if it doesn't break anything downstream I'm ok with removing. It looks like it shouldn't but maybe we run check...

Thank you, something must have been changed in GenomicRanges that causes this. On Mon, Jan 31, 2022 at 5:28 PM Mike Lee ***@***.***> wrote: > Heya @pkothiyal and devs, >...

I think following Kasia's suggestion would work. I personally do not have the code to do that. But the idea is you need to re-create a GRangesList object returned by...

you can use simple GenomicRanges functions for that. Have a look at here http://compgenomr.github.io/book/genomicIntervals.html On Tue, Jun 4, 2019 at 11:28 PM lshepard2154 wrote: > Hi, > > I have...