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Look into using VAF to visualize clonality
Will probably need to retain duplicate donor reads/samples to do so
Think about this more
https://www.biorxiv.org/content/early/2018/02/05/260471
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The link for the paper BMA: Visual Tool for Modeling and Analyzing Biological Networks, Benque et al. should be changed to https://link.springer.com/chapter/10.1007/978-3-642-31424-7_50
New papers …
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Hey there,
currently when trying to execute `test.py` without having a GPU or Cuda installed it throws the following error (even when setting `--gpu_ids` to `-1`):
```
Traceback (most recent call…
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I encountered a problem when trying to run fcirc on one of the samples from your publication (total RNA of COLO-829 melanoma cells). I keep getting an error with mapping the reads to transcription, bu…
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Hello. Do you have recommended list or source of cancer tumor datasets that can be used as reference for projecting samples in scmap?
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Sections 7 to 10 are a list of dot points and I would like to see the details added. A collaborator is considering using Infinium MethylationEPIC arrays for cutaneous squamous cell carcinoma. But, the…
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I've added a couple ITP conditions from this paper, but it likely has additional experiments we could use for ITP and B cells: https://www.sciencedirect.com/science/article/pii/S1074761311004985
Al…
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This is a UI enhancement request. In search results, for terms that are OBO Ids, I would like to be able to clearly see the OBO Id.
I've mocked up an example in the image below to illustrate wha…
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In genotype to phenotype datasets, we often see a variant or genotype being linked to a disease along with a statement of clinical significance. For example, a variant may fall on a spectrum of benig…