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Hi,
I have received a Single Cell Dataset `obj_sc_project555` and a spatial dataset (Visium) `obj_spatial` from the same tissue and all pre processing was done by someone else (to make things even …
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Issue by @MaxUlysse, moved from SciLifeLab#666
- [ ] [ExpansionHunter](https://github.com/Illumina/ExpansionHunter) for estimating repeat sizes
- [ ] [QDNAseq](https://github.com/ccagc/QDNAseq) CN…
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We'll need to have this in place to more easily showcase the FacileData API.
Some choices could include:
* The [ROSMAP](https://www.synapse.org/#!Synapse:syn3219045) project. This may be ideal s…
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Hello everyone, I am a Computer science college student and new to radiomics and medical science.
I want to build a radiomics feature-based classifier. I have to take CT scans Dicom images.
Firstl…
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@cmungall, with a few magical queries:
```
mondo mappings -M UMLS i^MONDO -O csv | cut -f1 > ~/Downloads/mondo-with-umls.txt
mondo labels [ .idfile ~/Downloads/mondo-with-umls.txt .minus .is_obs…
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I have compared MSI scores for the same tumor samples between:
1. its matched normal (`msi`)
2. a baseline of normals (`pro`)
I had 65 tumor and 58 normal samples of which 55 are matched.
In…
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Hello,
Just hoping for some insight as to why pixel values were clipped from -79 to 304 in the KiTS19 example. Does this relate to the window/level operation on images? I.e. if I am using images wi…
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Hi @gtonkinhill, thanks for the really detailed analyses. This looks like it took a lot of time to put together, and I genuinely appreciate the public release on Github. I have two concerns and some q…
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**Describe the bug**
VarDict SVs once again end up in the SNV VCF files, making them hard to visualise for the user when loaded in Scout.
**To Reproduce**
Load e.g. case `novelbear` (or presumabl…
dnil updated
7 months ago
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```
Currently dicompyler will read the volume data directly from the calculated DVH
(as of r7db70b8ed0 ).
Prior to this, the volume was calculated in dvhdata.py. However, this volume
was inaccurate…