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Hi there, thank you for this amazing tool. My team as been using it a lot (see issue #265) but when I try to reproduce the analysis I came up with a few questions.
I did 10x genomics kit 5` GEX an…
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### Description of the bug
sample.csv:
```
sample,fastq_1,fastq_2,feature_type
NPC_Astro_Diff_aBeta,NovaSeqX_20240927_LH00181_0041_B22TF5VLT3_bcl-convert_KL_NPC_Astro_Diff_20240916_scRNA_10X_Flex_NP…
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**Describe the bug**
When I run the command :
celescope vdj mapping_vdj --outdir ./Zhoujianxin_GC/04.mapping_vdj --sample Zhoujianxin_GC --thread 8 --ref_path "/mnt/b95b4929-e82a-40e3-aa94-c772e90d8…
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what's the actual pose image F_t you render? Is the first colored image type or the skeleton-like type?
最终渲染出来的pose图是pipeline里这个彩色的,还是后文图里那个骨骼?This really makes me confused!
![UZNYC~`IO2VW}VDJ%41U…
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I attempted to analyze BCR sequencing data generated using the GEXSCOPE® Single-Cell Immune Receptor Library Construction Kit with the multi_vdj_full_len tool. However, I encountered an error during t…
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## ❓ Questions and Help
We have a set of [listed tutorials available on the website](https://immunarch.com/articles/).
Immunarch looks great and easy to work with.
I was wondering if there is any…
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Interesting project! We were looking at available longread tools that might be applicable to 10X 5' VDJ data - looks like BLAZE could be a good startpoint re-utilising modified `find_adaptor` code to …
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### Description of feature
I am currently looking into using scrnaseq for a clinical trial. In our setup we have GEX, FB, and VDJ data for several patients which are hashed using Totalseq-C. Curren…
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## Is your feature request related to a problem? Please describe
TRUST4 claims they can call TCRs not only from VDJ-enriched 10x data, but also regular 10x 5' seq and other scRNA-seq protocols.…
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Hi,
I have tcr fastq datasets, and the barcode+umi is 20bp (NCCCAAGGGT+AAAGGTAGTA) instead of the usual 26bp. I wondered if Trust4 could work successfully in this scenario?
Another question is: …