SPARK
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xzhoulab
Spatially resolved transcriptomic analysis
Chip: Apple M1 OS: MacOS Monterey 12.3.1 ld: warning: directory not found for option '-L/opt/R/arm64/gfortran/lib/gcc/aarch64-apple-darwin20.6.0/12.0.1' ld: warning: directory not found for option '-L/opt/R/arm64/gfortran/lib' ld: library not found for -lgfortran clang:...
I'm trying to install SPARK on Mac but getting the following error R version: 4.3.1 MacOC: M1 Pro > if(!require("SPARK", quietly = TRUE)){ + devtools::install_github('xzhoulab/SPARK') + } Downloading GitHub repo...
Thank you for developing this great method! Would it be possible to implement an option for the covariate matrix to not include a column of ones? An intercept-less covariate matrix...
For the function `sparkx`, the input parameter `count_in` should be p*n matrix, instead of n*p matrix. Can you confirm?
Occurred while analyzing some 10x genomics visium data. The code block below will produce the following message repeatedly and then error out *# fitting count-based spatial model under the null...
Occurred while using [FFPE_DCIS data from 10x genomics](https://support.10xgenomics.com/spatial-gene-expression/datasets/1.3.0/Visium_FFPE_Human_Breast_Cancer) The code block below will produce the following message until the end of wall time or until exceeding RAM: *Error in spark.ai(model0,...
Hello, Thanks so much for this great tool! I am interested in applying SPARK-X to some large spatial datasets and would also like to incorporate additional covariate matrices, such as...
你好， 非常感谢您开发了spark工具，运行速度相较于其他同类型工具快了指数级。我最近使用seurat整合了多张切片进行分析，使用CCA去除批次之后，integrated assay仅有3000个基因了，我该怎么利用去批次整合后的数据分析SVG呢？ 期待您的回复， 谢谢！
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Hello, Recently, I tried the SparkX developed in your laboratory, and found that its computing efficiency is much higher than Spark. However, I saw the article that SVG was extracted...
A few packages, such as `doSNOW`, `RcppArmadillo` and `pbmcapply` were not included among the Imports, blocking the package build. I've also moved the sample data in `extdata` to avoid a...
