-
### Description of feature
Store genes that are filtered out somewhere in the pipeline. These could be useful for development and may be of interest in certain research contexts
-
There appears to be a bug still if someone puts an unknown gene in the gene list.
I thought it was transcripts causing the issue but that may not be the case because if a transcript is not found ther…
-
Hi @orenbenkiki !
I am following the vignette for running MC2. I chose the initial lateral genes (e.g. `BASE_LATERAL_GENE_NAMES` and `BASE_LATERAL_GENE_PATTERNS`).
After that I ran the process o…
-
Notes from meeting 24-11-27
* It would be useful to know what genes tend to be of lower coverage, and ideally have an overview of this on the panel overview page
How to approach
* Potentially start…
-
Hi,
I am wondering if you could point me to the file used to group the genes into the functional categories (Ammonification, Ammonium oxidation etc.)
Thanks
Camilla
-
Hello,
I've been following the Joint RNA and ATAC analysis: 10x multiomic tutorial on the Stuart Lab website to process output from the 10X Genomics Cellranger ARC pipeline. I've been trying to run…
-
Hello,
I really enjoyed your paper (great method!), and I am applying spaCET for deconvolution of a lung cancer ST Visium data set. For validation, I would like to know how to find the marker genes …
-
I have read in your documentation that
**_The new.prism function removes any genes in the mixture greater than 1% in more than 10% of the mixture samples by default. This threshold is very lenient…
-
Features:
- [x] Collapsible panel (drawer)
- [x] Show all the query genes and the regulators in the current network -- do not show the other genes returned by the iRegulon results
- [x] Search (f…
-
STATUS: DRAFT
Use case:Queries that can unify Gene expression/function/markers whether they are proteins, genes or transcripts.
TBD:
- Do we simply unify proteins/transcripts/genes or do we ma…