-
Hi,
I used the `spec2nii` command to generate sidecar files for Siemens dicom MRS data. I three types single-voxel MRS files: `_ref` (water reference file), `_ECC` (eddy current corrected), and `_noE…
-
Hi, I am getting the following error when trying to run histoqc on .svs files.
Command:
`python -m histoqc -c v2.1 -n 3 "./input_svs_test/*.svs"`
Error:
`
2024-07-03 15:43:52,680 - INFO - --…
-
After connecting to SVS viewer and running our ITL/Thor agent for a bit to add all of the scene data to SVS, the viewer crashes with this output in the terminal:
```
qhull_in = /tmp/qhull_in_irf6e…
-
I am using the complete wf-human-variation pipeline v.2.2.4 (previously I used dorado 0.6.0) with --sv --snp --phased --cnv options. I have **3 affected siblings** (A1, A2 and A3) with both the **dele…
-
Hello! Great job! I would like to know a few things. Interested in SVS (POPCS)
1) Can you tell me about inference? What files are used for inferencing? What's the recipe? How did you manage to repeat…
-
I'm attempting to get a merged vcf file of two different SVs callers (Delly and Lumpy). So I used StructuralVariantAnnotation to get both vcfs into GRanges objects. I used findBreakpointOverlaps() and…
-
Hi @lgmgeo
I am running AnnotSV on several samples (6 samples) which includes two trios from patients. Does AnnotSV support prioritizing structural variants (SVs) in trio samples, or is there a reco…
-
https://eurychen.me/post/lx_svs/
-
Hi,
After building and exporting an SVDB database with `svdb --export --db gms_svs_cnvs.db`, trying to bgzip and tabix the resulting file results in
```
[E::hts_idx_push] Unsorted positions on…
-
When I convert a pyvips object to numpy, I encounter a memory overflow issue. After I chunk the image and write it back to the same SVS file, the SVS file becomes unusable. Is there a problem with my …