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Currently, there is no submission code for scAtac.
Since we no longer use DNANexus for submission, it makes to develop a new API for scAtac or snRNA
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Hi,
Thanks for the great tool. Recently I've installed CellBender in an Ubuntu server, and I've been having a problem in which the ckpt checkpoint is not saved, and thus the tool is uncapable of co…
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Hello. I started with the [Loading 10x Genomics Data](https://immunarch.com/articles/web_only/load_10x.html) tutorial, downloaded the CSV files from [10X website](https://support.10xgenomics.com/singl…
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### Project short name: LungOrganoidsTCR
### Primary Wrangler:
Arsenios
### Secondary Wrangler:
Wei
### Associated files
* Google Drive: [folder](https://drive.google.com/drive/folders/10Bmm…
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Issue Documentation is http://handbook.arctosdb.org/how_to/How-to-Use-Issues-in-Arctos.html
**Is your feature request related to a problem? Please describe.**
_A clear and concise description of w…
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the specification for 10x Single Cell RNA 3' v2 appears to contain a mistaken sequence entry for the R1 barcode:
https://github.com/IGVF/seqspec/blob/d77ca7e390f1ae9ebac596bbed4ab0d6526f612a/specs/10…
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Hi! Thanks for developing this amazing tool. I have a conceptual question regarding the filtering step.
In the paper, you mentioned:
> Here, by default, the 10x cellranger clonotype definitions…
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One of the fastq files I'm processing was carried out using the NEXTflex™ Small RNA-Seq Kit for library prep which uses an adapter sequence with Ns in it
NNNNTGGAATTCTCGGGTGCCAAGG
I tried passi…
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Hi! Do you have a list with a quick description for the file formats that can be used for the barcode whitelist, please? (I used a simple .txt file with a cell barcode on each line.)
Thank you very m…
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The metadata file used to create my phyloseq object has a couple spelling errors, and now it is recognizing one sample name as two sample names. Example: the variable "tissue type" contains the catego…