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Hello, I am interested in starting using TRUST4, and was wondering what is the best approach to run it on SMARTer data, in terms of parameters, pre-processing, etc.
I run a subset of 100K paired-…
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With v4.0 of the iReceptor Gateway, we've added the ability to query Cells in the ADC. With this comes the question of how to represent pcr_target_locus for paired chains from cells (our example 10x s…
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Thank you for sharing your fasinating work. When I use it, I find all my TCR-pMHC get a very high rank which in your paper represent high possibility for binding. But, in our perspective it can be pos…
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Hi,
I recently got a dataset from our collaborator who processed bulk TCR-Seq using Decombinator. I read in your publication that the data is AIRR-compatible but when I tried loading it in R using `…
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Hi,
I would like to map the mixcr TCR output to individual cells (using scRNA-seq data). That is, determine which cells contribute to the identified TCR repertoire. Is this possible?
Thanks and …
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https://mp.weixin.qq.com/s/QXZgq-kefkiX1GwtKxvIUw
ixxmu updated
1 month ago
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Hey everyone.
I am trying to use this tutorial (https://immunarch.com/articles/web_only/v21_singlecell.html) in order to load my 10x TCR data in order to track clonotypes across seurat clusters (as …
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[tcrdist_alpha_sample.pdf](https://github.com/kmayerb/tcrdist3/files/13244328/tcrdist_alpha_sample.pdf)
Hi, tcrdist works fine when I use the sample data (dash.csv), but when I try it with other …
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Hi,
I analyzed the capture sequencing data (TRB) with mixcr, but got some very low align pct in align step, and the unaligned reads were matched well with TRBV region. What's the rules that speci…
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To all,
I just load the TCR data from 10X using repLoad, but the warning massage returns;
Warning message:
The following named parsers don't match the column names: barcode,is_cell,contig_id,hi…