-
I am trying to remove INFO/ID columns from a vcf file (part of the header can be seen below).
```
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
##INFO=
…
-
Hi @SeppeDeWinter
I encountered an error when running **my run_scenicplus.py script** in the terminal to **generate the scplus_obj object**
```
import dill
import scanpy as sc
import os
imp…
-
The code is : python ~/ChIP-seq/ABC-Enhancer-Gene-Prediction-1.0.0/workflow/scripts/predict.py --enhancers EnhancerList.txt --genes GeneList.txt --hic_file ./test/10/EDL.10.done.bedpe --hic_type …
-
Hi Edoardo,
I've downloaded the binaries and all the GRCh38 files
When I try to run the test I get the following error:
`$ ./greenvaran smallvars -i test/VCF/GRCh38.test.smallvars.vcf.gz -o test/ou…
-
When I have experimental HiC data, should I predict with -scale_hic_using_powerlaw on?
_Originally posted by @tan5251 in https://github.com/broadinstitute/ABC-Enhancer-Gene-Prediction…
-
Hi,
I got an error when using ananse network for non-model organisms.
$ ananse network -e ananse_data/stringtie/MS.txt -g M_albus_1.0 -n 1 -o results/ananse_network/MS_network.tsv results/ananse_b…
-
When attempting to clone the repository by running : git clone git@github.com:broadinstitute/ABC-Enhancer-Gene-Prediction.git
I get the following error"
Cloning into 'ABC-Enhancer-Gene-Predicti…
-
Hello,
I was trying to obtain some information that's not currently part of the output from SCEPTRE and I was hoping to get your assistance as to how/if I can obtain this information. I have a high…
-
Hello,
the number of enhancer-target pairs (no-threshold) between ABC and your adapted model (considering just one tss) differs (ABC is more). What is the reason for that since both methods use the…
-
Hi,
First of all, thank you for developing the software, the repository and writing the documentation, and, also thank you for the support. We are trying to run the AbC enhancer prediction in the c…