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The 9th international Semantic Web Applications and Tools for Life Sciences (SWAT4LS) conference is occurring concurrently with the CIViC Hackathon Dec 5-8, also at the NKI in Amsterdam. In an effort …
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Currently, the tiling feature works on the regions of WSI where the FESI or improved FESI algorithms find foreground. This cannot be overridden to have tiling on the whole WSI (including the backgroun…
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For reproducibility it's common to keep track of command-line invocations in a file header (sequence alignments). Clap seems to miss a way to display the command-line, or at least the documentation is…
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I got a stacktrace during a number of updates on a database, where the database file itself had write permission, but the directory where it resides, had only read and execute permissions. Not sure wh…
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Of which YASARA version is required to run the refine.mcr scripts?
```
yasara -txt refine.mcr modelin='AF-Q9ZV05-F1-model_v1.cif' modelout='refined.cif'
```
I ran the script but got an error:
```…
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**Submitting author:** @georgeyiasemis (George Yiasemis)
**Repository:** https://github.com/NKI-AI/direct
**Branch with paper.md** (empty if default branch): joss-submission
**Version:** v1.0.1
**…
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1. The class must be able to take Shapely objects containing slidescore annotations as input.
2. It must save the annotations as multi-resolution images in the tiff format.
3. The utility can be us…
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Hi there,
I'm getting this error when trying to install the R package with the below command
```
options(repos=c(getOption("repos"), "http://ccb.nki.nl/software/discover/repos/r"))
install.pac…
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https://github.com/NKI-AI/dlup/blob/d69208c3472085d371f540ae742222ad27f7430c/dlup/viz/plotting.py#L104
bbox = bbox[0]
bbox_color = bbox[1]
here, we modify bbox on the first line, then set the c…
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BIDS Tutorial Series > Part 1a: Introductory Walkthrough prompts to download DICOMs from the [Nathan Kline Institute (NKI) Rockland Sample – Multiband Imaging Test-Retest Pilot Dataset.](http://fcon_…