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Would you have the code available to reproduce the benchmarking part of the paper ? Many thanks !
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Hello, thank you for the tool!
I encountered some problems while trying to run the examples.
In the first example ([Mouse Brain](https://carter-allen.github.io/banyan_stxBrain.html)) everything wa…
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Hi, I'm using reticulate to perform the scanpy tutorial for single cell data analysis.
#R
library(reticulate)
reticulate::repl_python()
#mkdir data
#wget http://cf.10xgenomics.com/samples/cel…
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A recurring feature request — provide automatic chemistry detection, at least in the case where we know that the input data is 10x. This would look something like passing `-c auto10x` and `simpleaf` …
rob-p updated
1 month ago
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Hi,
I am running it on a bam file but the error message told me it could be truncated. I am seeking a way how to skip these errors.
Slight data loss is acceptable.
`[W::bam_hdr_read] EOF ma…
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你好，我现在打算运行这个程序，研究时不太理解输入的文件。
首先是peak_gene_100k_corr.bed这个文件的第三第四列是什么，数据是从哪里来的呢。我使用10X（https://support.10xgenomics.com/single-cell-atac/software/pipelines/latest/using/count）做单样本分析时数据其中的一个文件是p…
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hello，When I used data with Visium for fresh-frozen from https://www.10xgenomics.com/cn/datasets/fresh-frozen-visium-on-cytassist-human-breast-cancer-probe-based-whole-transcriptome-profiling-2-standa…
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Dear @sqjin
Hi, I'm a big fan of your program.
However, I have just two questions.
# Q1. Spot diameter
The spot diameter of 10X visium is 55um.
This is the note from 10X genomics.
"…
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I would like to request support for processing UMI data that is contained in a sam tag (e.g. the UB tag in 10x data-- https://support.10xgenomics.com/single-cell-gene-expression/software/pipelines/lat…
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I have generated a VCF using BCFtools on CentOS 7. When calling Vartrix, this VCF is not recognized :
Vartrix error. v1.1.14.
Error: failed to open BCF/VCF from /home/ulb/iribhm/atourneu/variant/ATC…