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Hi @GregorySchwartz, I am trying to run `too-many-cells` on a linux cluster where I don't have sudo access and docker is not a viable installation options. Can I use prebuilt linux binaries of `too-ma…
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Project was [published in DCP](https://explore.data.humancellatlas.org/projects/c5ca43aa-3b2b-4216-8eb3-f57adcbc99a1) but donor metadata is inconsistent between DCP vs publication/GEO (34 vs 12 donor)…
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I tried to run my own data on different servers, but all reported the same error, just in case
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### Description of feature
Dear @marcovarrone,
Thanks for providing CellCharter! Concerning the CODEX tutorial, could you give a suggestion on what dimensionality reduction method should be used,…
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I would like to ask how Trust4 can directly analyze paired-end .fastq format data from the 10X Genomics platform for single-cell analysis, instead of analyzing BAM format data. Can you provide support…
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Hi, thanks for your wonderful tool to help adding the clonal resolution in single cell level. And I followed the tutorial in the Downstream analysis for Patient A.6 in clonal_inference/vignettes secti…
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Recently, after installing the seurat package on two new computers, I re-executed the Seurat - Guided Clustering Tutorial (https://satijalab.org/seurat/articles/pbmc3k_tutorial) using the same data an…
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Hello,
I'm trying to run velocyto using 10x data and GTFs for macaca mulatta from NCBI. The command is:
velocyto run -o ./outs -b barcodes.tsv.gz --samtools-threads 11 -m mm10_rmsk.rename.gtf 43…
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Hi,
I am particularly interested in the scATAC-seq data you generated as part of your study. To further my research, I would like to request access to the metadata information (such as cell type a…
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Hello,
Thank you for developing such a wonderful tool.
Recently, I attempted to execute somatic variant calling from scRNA-seq data.
The preprocess and germline calling sections executed successful…