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Fabio Acero talk at the Chandra Workshop presented the results of 3D spectral-spatial analysis of Cas A. He combined Sherpa (models and I/O) and gamma-py (3D) to perform the fitting. Sherpa needs to b…
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I came across the following problem when I ran calculate_GFscore function:
GF_df = spotgf.calculate_GFscore(gem_path,binsize)
Calculate SpotGF scores for genes with binsize 77
Process with Bin…
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### Project short name:
MerfishCorticalLayer
### Primary Wrangler:
Ida
### Secondary Wrangler:
### Associated files:
* Google Drive:
* Publication: [Spatial Single-cell Analysis Decodes Cortical L…
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Group Name: Let’s Get Fiscal
Group Members: Pedro Morais, Braedon Fiume, Matt Adams
October 30, 2020
Update #1
General Idea:
The COVID pandemic has forced many businesses to shut down, howe…
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Hi, thanks for an exemplary data availability!
I would like to use your dataset for an analysis, and have found the molecule coordinates allright, but I was wondering where I can find the cell type…
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I'm trying to call `problem.impute()` on a solved (linear) spatial mapping problem of dimensions `n_source=17806` (spatial data) by `n_target=13298` (single-cell data) for `n_genes=2039`. This is just…
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istar is a really nice work!
But I have the following concerning about applying istar to 10× Visium data.
① Usually, the output of 10× Visium data include a folder named spatial, which containing…
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This module is responsible for holding data that can be utilized in decision making or for diagnostics. There are 2 different types of datasets that can reside here:
- Vector. This is data usually …
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We met a `Key Error` when using the API `lps.weights.Queen.from_iterable` when evaluating Moran's Index in spatial analysis, which caused by replicated points. We submitted our coordinates data `ar…
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Hi,
I'm trying to run graph_peak_caller on a ATAC-seq data which is aligned to a single test chromosome graph which was generated with the PGGB pipeline. After aligning the raw data to the graph us…