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I work with single-cell sequencing technologies, and have been troubleshooting using HoneyBADGER on some of my pancreatic adenocarcinoma scRNA data (generated using 10x genomics chemistry and an illum…
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Currently genomes storage is generated from internal and external genomes files, and is used for the pangenomic workflow. Unfortunately due to my oversight at the beginning it has some shortcomings:
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meren updated
4 years ago
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From @lauraclarke :
The link https://www.humancellatlas.org/data-release-policy/ might be better than a straight pdf link, keeps us up to date with the policy as it changes
An interesting proposal f…
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The search should be limited, currently if I can search for \* in the GetAny field, it takes a long time ( > 20 minutes) to run the search query. (I might have brought down the public version of gn2 b…
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Hello,
I'm trying to re-analyze some sample data from the 10X Genomics website. However, I'm finding that the reads are generally split across multiple files. For example, here are the fastqs for t…
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Hi SingleCellPortal
I've been looking with great interest at some of your data stored in the mtx format - which as far as I can tell is a convenient way to store sparse matrixes.
So these typica…
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Hi Seurat Team,
Thanks for developing such a useful tool for single-cell genomics
I am confused when using the function named “FindConservedMarkers" in Seurat because of the error :
**Error in name…
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I have 12 10X Genomics Chromium single-cell RNA sequencing libraries of varying depths. I want to perform cell to cell comparisons as well as sample to sample comparisons, so this requires that these …
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Hi @FelixKrueger,
I know that `coverage2cytosine` has functionality for outputting per-position methylation counts/percentages in `.cov` format for GpC/NOME-seq methylation. However, I am working o…
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For new term requests, please provide the following information:
## Preferred term label
10X 5' v3 sequencing
## Synonyms
10X 5' v3
## Textual definition
10X 5' v3 is the third versi…