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**Description**
As a data wrangler wrangling a project with 10X 5' V(d)J data I need to determine the correct way of defining the experiment in our spreadsheet and determine whether any a…
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As a TL I would to check the report consistency, identify and flag inconsistencies so that we can improve confidence in the report.
**Acceptance Criteria**
- [ ] Identify report rows where the m…
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Hi, here. We used the ExpressionSet function to build the input datasets and run the MuSiC. However, there were something wrong.
The single-cell datasets and bulk datasets were as follows.
```
bulk…
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### Discussed in https://github.com/COMBINE-lab/alevin-fry/discussions/101
Originally posted by **ljudevitluka** January 31, 2023
Hi all,
I am working on the scRNAseq dataset generated with t…
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Hi,
First of all, thanks for your amazing tool(s), I find STAR and STARsolo extraordinarily useful. This is to report that STARsolo's UB and UR don't have the same length when processing BDRhapsody…
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Hi,
I got an error when running RunNiches() stating that
Compute edgelist based on mutual nearest neighbors.
Error in .make_numeric_version(x, strict, .standard_regexps()$valid_numeric_versio…
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Hi,
I am trying to use the STARsolo function to process full-length 10X cDNA reads. I parsed the data into read pairs (One containing the actual (~1200nt) read, the other the 10X cell barcode and …
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I'm just using 3 input fastq files with 10k reads each, as just a test.
My workflow:
```r
config_file = FLAMES::create_config(outdir, type = "sc_3end", do_barcode_demultiplex = TRUE)
sce = …
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# Issue Report
I am working with data sequenced with a Promethion P2. The library protocol was done with a Twist Mechanical Fragmentation kit, using stubby adapters and IDT UDI 96 well plates. I have…
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Closing #9 and #59, the previous issues on benchmarking preprocessing workflows, and opening a new issue to start discussing a concrete plan on building the tools we need for benchmarking.
In thin…