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I have 3 bed files to count overlapping regions.
```
# Union
bedops -u test1.bed test2.bed test3.bed > union_bed_file_list_3_samples.bed
# Merge
bedops -m test1.bed test2.bed test.bed > mer…
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I tried to build the docker file (in order to be able to get a singularity image).
The build fails with this error message:
Command "python setup.py egg_info" failed with error code 1 in /tmp/pip-…
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**Description of the desired feature:**
Automatically extract function from `fetch` to create either a list of datasets, or a gallery of thumbnails of the datasets.
To do:
- [x] add notebooks…
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Hi! I have a technical question. I have a set of scRNA that has been processed and labeled in Seurat and I wish to use that data to identify a set of scATAC-seq that have been processed in ArchR.
I…
wfma updated
7 months ago
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I am trying to overlap a file with itself ,
File i am trying to overlap with itself is sample.bed and the command i am using is
```
bedmap --max --echo-map-id --fraction-ref 0.9 --echo-ref-name --i…
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I use this command `bedops --intersect A.bed B.bed > intersect.bed` to output my intersect region BED file, but only the intersect region was recorded in output file. Do we have a solution that we can…
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Hi @jtlovell ,
I wonder whether it would be possible to generate a riparian plot from synteny data computed with other software. If so, is there any documentation or sample data file that we can use …
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At some point should we consider creating new topography for 1 and 0.25deg which is more consistent with the 0.1 deg topo?
The minimum depth is probably too large at 1deg and 025deg, now that we ha…
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Hi Alex
Thanks for the anwser of my previous question. It worked well. :)
this time.. I have a question about bedmap command.
I like to map rsid to chr-pos in my sumstat.
#1. I prepared "…
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I have tried to use the bedgraph output from HICHiP-peaks to run in diff-FITHICHIP that runs EdgeR to populate, compare and find differentials in 1D bins for CHIp coverage. I think the bdg format is…