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I'm aligning 10x genomics scATAC-seq to the rheMac10 genome. The sequencing is 50bp for R1 and R2 paired-end sequencing on the Novaseq. The genome was built with k`17` and w`7` for min frag `30`. But …
badoi updated
2 years ago
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- Double check the clarity of the polls
- Reduce background slides
- Merge Part 1 and part 2
- Organize one workshop in 1 day morning and afternoon + 1 day for integration vs 3 days 2 hours worksh…
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Hello,
After running your software, I noticed that some beads were classified as originating from the same cell. Could you please explain how this determination is made? Specifically, I'm curious a…
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Dear Kenji,
Thank you for sharing and maintaining this great tool, CellOracle, with great documentation and tutorials!
I'm trying to build GRNs in early zebrafish embryos using our own single-ce…
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Hi Dr. Zhang,
I read your Polarbear paper and planned to run the model on some multiomics data. It seems that the data provided via the link (https://noble.gs.washington.edu/~ranz0/Polarbear/data/…
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Hi
i want to analyze some scATAC-seq data. And after unzip, i got 10 folders (1 patient per folder). In folder, there are 2 subfolders in whcih scRNAseq data and scATAC-seq data exist seperately. W…
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Hi
i want to analyze some scATAC-seq data. And after unzip, i got 10 folders (1 patient per folder). In folder, there are 2 subfolders in whcih scRNAseq data and scATAC-seq data exist seperately. W…
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Hi,
It is just a naive idea. According to the paper, you describe that scATAC-seq has the issue of "missingness" like the dropout in scRNA-seq data. So what if using a zero-inflated Bernoulli to char…
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Hi
i want to analyze some scATAC-seq data. And after unzip, i got 10 folders (1 patient per folder). In folder, there are 2 subfolders in whcih scRNAseq data and scATAC-seq data exist seperately. W…
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Hello.
I have 4 snATAC-seq samples from the DNBSEQ-T7 platform, and for each sample, they are mixed with multiple cell lines. For R1, the read length is 50bp, and for R2, the read length is 70bp.
I …