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Hi,When I was running this function, I encountered the following error, I checked my motif matrix and gene name, but I did not find a number beginning, I feel very confused, can you give me the answer…
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Hello Jonas,
Thank you for your very interesting tool.
After omitting the genome frokm my code and kept on regions = StringToGRanges(Links(object[['ATAC']])$peak), it was successfully executed. The…
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Datasets for gene feature boundaries, or ncRNA
Data type/ details | method | PMID | First/last author | data source | status | Comment
-- | -- | -- | -- | -- | -- | --
intron/spliceosom…
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Same issue for me too
```
> SaveH5Seurat(object = pbmc, filename = 'pbmc_tmp.h5seurat', overwrite = T)
Warning: Overwriting previous file pbmc_tmp.h5seurat
Creating h5Seurat file f…
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I have RNA modbams with m6A (in DRACH motifs) and everything runs without error but wgmeth/differential methylation results are sort of confusing - are there going to be RNA-specific additions to meth…
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I am trying to use mCross to detect RNA motifs for an RBP using the alternative approach that skips the top n-mer detection step. I provide FASTA sequences for background and peak signals directly. Ho…
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Hi,
I am trying to compute the Cistarget step of pyscenic after obtaining meta cells with the metacell2 pipeline and then the GRN with arboreta package and saved in a tsv file. However, I keep obtain…
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```
❯ docker run --rm\
-v /mnt/nvme-1/2-hubmap/spatial/ref-scrna/data/ft:/app/data\
-v /mnt/nvme-1/2-hubmap/spatial/ref-scrna/out/ft:/app/out\
-v /mnt/nvme-1/2-hubmap/sc-transmogrifier:/app/sc-…
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Good afternoon! I have been sporadically tinkering with my GRN analysis for some time, and I am running into various problems. For starters, the number of unique target genes detected by Pando is less…
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There are noncanonical motifs that recur inside internal loops (e.g., in ribosome sarcin/ricin loops, glutamine riboswitch RNA puzzles, etc.)
```
...GUAX-3'
AGY-5'
```
where X/Y is a Watson-C…
rhiju updated
4 years ago