Caleb Lareau

I haven’t done this myself, so I’d recommend some amount of parameter tweaking, but in brief You’d want to turn off any restriction fragment aware data when calling peaks `--skip-background-correction`...

Hi Andrea, `call` mode is still under development and not fully supported. I’m hoping to finish it soon! > On Jul 2, 2018, at 6:30 PM, Andrea wrote: > >...

Yes, sorry overlooked that second half… Can you run hichipper keeping temporary files and then send me an `ls -lrth`? The error message is fairly generic but that should help...

Sorry this got away from me... I actually need to see the files output directory (hard to know which one this is from this list?)

As far as I can tell, everything in hichipper is working just fine. I’d recommend upgrading macs2? > On Oct 3, 2018, at 11:48 AM, Andrea wrote: > > Quite...

Hmmm, looks like you are missing an R package in your system? https://bioconductor.org/packages/release/bioc/html/GenomeInfoDb.html > On Oct 10, 2018, at 11:18 AM, Andrea wrote: > > Caleb, > > Another question...

This isn't a particularly informative error message, but typically this is caused by a sample where there is very very low sequencing depth. can you send a cat of your...

Yeah you have way way too valid intrachromosomal interactions. I would say that this dataset is p ``` Mapped_unique_intra_quality_anchor=774 Mapped_unique_intra_quality_anchor_small=495 Mapped_unique_intra_quality_anchor_med=207 Mapped_unique_intra_quality_anchor_large=72 ``` judging by how aggressively these statistics fall...

Hey Armen, Still in progress but will update you when it’s completed… hopefully soon. > On Jul 5, 2018, at 10:59 AM, Armen Abnousi wrote: > > hi, is the...

Can you send me the number of lines in each output file?