Francois Serra
Francois Serra
Hi, I do have the same problem with few BAM files. In my case I can reproduce the error with one unique BAM file. multiBamSummary version: 3.5.1 command: `multiBamSummary bins...
Hi, just wondering how this is going... @owlas if you have done something even incomplete, do you have it on a personal fork? thanks!
@owlas sure, it would be great!
make test independent from IMP version, or even modeling library used.
Confirmed, checking solution consisting in changing the import at https://github.com/3DGenomes/TADbit/blob/master/_pytadbit/parsers/map_parser.py#L6 from: ``` from bisect import bisect_left as bisect ``` to: ``` from bisect import bisect_right as bisect ``` Have to...
Another issue: when a read is mapped on the reverse strand just before the restriction site ``` -----A|AGCT T-------------- -----T TCGA|A-------------- =========> ^ | From here ``` It's an Extra-dangling...
Also bin filtering could be done on single chromosomes
check: - https://github.com/pkerpedjiev/higlass-jupyter
Hi Andreu, I will add a cuple of suggestions to David's one: - First it seems that you are using a bias generated with an old version of TADbit. Perhaps...
should take into account this use of the `one=True` flag: https://github.com/3DGenomes/TADbit/blob/324bb0357d4071bef054dadefcd535216ba4ba02/_pytadbit/modelling/structuralmodels.py#L481 The documentation of the parameter one should also be changed... Right now it is not the RMSD returned, but...