reg-gen
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CostaLab
Regulatory Genomics Toolbox: Python library and set of tools for the integrative analysis of high throughput regulatory genomics data.
Hello, I got a rather strange error message while trying to install RGT package: ``` File "/scratch/dkedra/.conda/envs/rgt_thor/lib/python3.9/site-packages/pkg_resources/__init__.py", line 1420, in get_metadata return value.decode('utf-8') UnicodeDecodeError: 'utf-8' codec can't decode byte 0xa9...
I am using python 3.9.7 on MacOS. I get a metadata-generation-failed error in the PyVCF package when I try to install RGT. 
Hi I have problems with the promoter_test that gives me this error *************** Promoter Test **************** *** Input RNA sequence: /home/bioinfo/rgtdata/Loc100420879/Loc100420879.fasta *** Output directory: Loc100420879/promoter_test/Loc100420879 Step 1: Calculate the triplex...
Hello RGT, Thanks for developing this amazing package. I met the error `KeyError: "sequence 'chr22' not present"` when following the full-site test tutorial here (http://www.regulatory-genomics.org/motif-analysis/introduction/). Could you please help me...
Hi HINT teams When I'm processing my ATAC-dataset with the step footprinting, my collegues complain that I took all the threads from server for quite some time (more than 30...
Hi, Thanks for the nice package. I was wondering, is there a way to do the analysis from Motif to Gene? Say for example, I have ATACseq data from two...
Hi, I was trying to apply TRIPLEXES to my data running `rgt-TDF get_TTS` but I could not find some common Triplexator's parameters, e.g. -L and -E. Instead, these parameters are...
Hi, I'm trying to add a single entry to the jaspar vertebrates database. I have a correctly-formatted pwm, have created a logo and added what seems to be a correctly-formatted...
Hey, I noticed the --output-profiles option on HINT differential and it seemed perfect for what I was looking for. Well I ran it and the txt files produced for each...
