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Hi @Spartanzhao , I am one of the reviewers for your JOSS submission for Annoroad. This looks like a helpful package for making visualizations. However, I'm not sure that it seems accurately named. Fo…
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Hi authors, thanks for this exciting tool!
I'm trying to plot raw reads from different small RNA libraries using the plotBed function. My problem is I want to maintain fidelity for the y-axis betwe…
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## **Describe the bug**
The pipeline stalls or ends prematurely before the IDR steps.
I have successfully run the pipeline on datasets using the mm10 genome, but it stalls when I use custom genomes…
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Hi there!
I've been looking at translating protein-vs-protein or HMM-vs-protein alignments to genome coordinates in GFF format for easy browsing by colleagues and gene curation.
But it's unclear t…
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Hi,
Your browser looks great
Could it support any Ensembl genomes for example http://fungi.ensembl.org/Schizosaccharomyces_pombe/Info/Index
Cheers,
Danny
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#### Proposed solution
Have a `info` in the response that specifies if the data in the beacon is 0-based or 1-based.
While the recommendation for the API is to be 0-based https://github.com/ga4gh-be…
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autoplot should accept RTLFile (i.e., the formal file classes from rtracklayer), in addition to the character (filename) method. This way, we do not rely on the file extension. In fact, the "character…
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# Scratch pad
hs38 primary assembly of GRCh38 (incl. chromosomes, unplaced and unlocalized contigs) and EBV
hs38a hs38 plus ALT contigs
hs38DH hs38a plus decoy contigs and HLA genes (r…
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**Is your feature request related to a problem? Please describe.**
The Variation Landscape tool in REEV was inspired by ClinVar lollipops graph. However, there are many more enhancements to perfo…