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### Is there an existing module for this?
- [X] I have searched for the existing module
### Is there an open PR for this?
- [X] I have searched for existing PRs
### Is there an open issue for this…
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# OGS remapping
- [ ] request whole-genome alignment
- [ ] Set up data directories and get data
- [ ] run remap-gff3
# manual annotation remapping
- [ ] request whole-genome alignment
- [ …
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hi,
Thanks for your great work.:)
I read that log2(TPM+1) data are needed but not UMI gene-barcode matrix from cellranger pipeline of 10x genomics.can UMI count matrix be input by somehow transf…
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It would be useful to start exploring data that is close to use case as we configure the different GDI Starter Kit services. A possible solution could be to load VCF files in addition to or instead of…
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### Submitter Name
Kyle Moad/Rachel Karchin
### Submitter Affiliation
Johns Hopkins
### Submitter Github Handle
kmoad/RachelKarchin
### Additional Submitter Details
We are the PI and an enginee…
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Hello,
We are analyzing Spatial Transcriptomics data from Visium 10X Genomics data, and we have multiple capture areas. We want to enhance our whole dataset with BayesSpace, but as it takes spatial…
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Hi,
I wanted to have your opinion on using purge_dups with 10X genomics data.
Have you tried to run it with such data?
For the mapping of the reads, do you think it is best to use the `longranger…
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### Name of the tool
Parse Biosciences Split pipeline
### Tool homepage
https://www.parsebiosciences.com/
### Tool description
similar to cellranger, parse biosciences pipeline allowes analysis o…
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Hello,
I was hoping you could share more about the input data structure. From the paper and github, it looks like you used a 10X Genomics pbmc dataset, and this 10X data was filtered and normalized…