-
while running:
```
nohup sos run pipeline/mashr.ipynb mash \
--container containers/stephenslab.sif \
--output_prefix Ast_Exc_Inh_Mic_OPC_Oli \
--data output/Ast_Exc_Inh_Mic_OPC_Oli.r…
-
Hi @GuangshengPei,
CZI has published their tabula sapiens database - https://tabula-sapiens-portal.ds.czbiohub.org/celltypes, and I wonder you can add the data to deCS. I believe the very enriched …
-
Smart grid sizing for SOM.
Clustering parameters should be dependent on the size of the data (nr of celltypes, markers or cells).
Choose clustering variables (n, sigma, lr, iter) based on data _le…
ftedo updated
2 years ago
-
I'm using Cellchat to compare two datasets with different conditions.
In part 1, I make a heatmap with the differential number of interactions and interaction strengths among different celltypes and…
-
Hi,
I am trying to predict cell types by calling `ast.predict_celltypes(dset : pd.DataFrame)`. I first wanted to test the function with the publicly available dataset `basel_22k_subset.h5ad` which …
jgu13 updated
2 years ago
-
Dear authors,
I have encountered the following issue while running the tutorial code with the binary included in the "gtm_decon_code" folder:
``
Running GTM Deconvolution Pipeline
Writing result…
-
Somewhere in their docs (allensdk examples? [Cell Types whitepaper](http://help.brain-map.org/download/attachments/8323525/CellTypes_Morph_Overview.pdf?version=4&modificationDate=1528310097913&api=v2)…
-
Hello,
I used Symphony to map two single-cell RNAseq queries to my harmony-integrated reference (made using the modular approach presented on Symphony Github). I used queries that were previously a…
-
Execute run_pipeline executable
run attach_metadata
compare metadata in output NWB file with the list in the ephys metadata google doc
/allen/programs/celltypes/workgroups/279/sample_dat_nwbs/
6 file…
-
Dive into each major "category", where category is a cell type (e.g. Cones) and re-run scVI -> clustering to find celltypes within the major cells types (for example there are ML and S cones) and (pot…