Aziz Khan

icon company Stanford University icon location Palo Alto, California icon location Computational biologist interested in gene regulation, machine learning, regulatory genomics and epigenomics

Results 36 comments of Aziz Khan

upsetr script not plotting

Can you please share the R script here or on my email azizk[at]stanford.edu? Thanks! Aziz

search not working in readthedocs

Thanks for reporting this! I will look into this shortly.

how to display the "--reldist" result?

Apologies for the late response. Can you try by reinstalling pybedtools?

conda install not working with existing environment python=3.7

Thanks for your interest! For some reason, it is not picking the latest version. If you force the version it should work. `conda install intervene=0.6.5 -c bioconda`

Questions: Why half of pairwise is not a exact mirror of the other half? And about negative values..

Dear @Rseq @amizeranschi, I apologize for the late response. For some reason, this slipped off my radar. This is quite tricky when we plot Ven diagrams for genomic regions. As...

Intervene Docker

Now available - https://hub.docker.com/r/asntech/intervene `docker pull asntech/intervene:v0.6.5`

AS_FilterStatus uses an incorrect number of fields for some records

Is this issue fixed yet? @TnakaNY I am using `GATK v4.1.7.0` and still getting the error `wrong number of fields in AS_FilterStatus?` while merging Mutect2 VCF files from multiple donors...

error when attempting to use pairwise

Hi @Abeer-hes please try this: #56 `conda install matplotlib==3.4.3`

Support for proportional venn diagrams?

This feature is almost ready and needs some testing. I'll try to get it soon, given the demand. Thanks for using Intervene! :-)

Intervene Docker

@jdamas13 sorry for the late response. I'll inspect it and try to get this fixed soon.