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Another form of sequence analysis is doing immune repertoire sequencing of the [VDJ recombination](https://en.wikipedia.org/wiki/V(D)J_recombination) locus in B and T cells.
For captured/enriched …
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I would like to ask how Trust4 can directly analyze paired-end .fastq format data from the 10X Genomics platform for single-cell analysis, instead of analyzing BAM format data. Can you provide support…
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- [ ] What types of knowledge and/or algorithms do we want to compute?
- [ ] specificity prediction algorithms
- [ ] gather comprehensive list of existing tools
- [ ] which algorithms will require cod…
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### Description of feature
Apparently this is a thing now (e.g. 10x spatial transcriptomics + mixcr, e.g. in [this paper](https://www.sciencedirect.com/science/article/pii/S1074761322000814?via%3Dihu…
grst updated
5 months ago
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Hi there,
Congrats on a great work, and thanks for developing this package.
I am attempting to pull TCR-seq data for T cells that also have the GEX/CITE-seq Seurat objects.
**QUESTION 1.** …
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The `hits[].projects` values in a `/index/{entity_type}` response come from one bundle per hit, and are not an aggregate from all the bundles for a given project.
For example, imagine multiple bund…
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Hi,
I'm using immunarch on a set of 3 cell types (2 biological replicates for each one).
I was wondering if there is the possibility to perform all the steps (repOverlap, repDiversity,...) on a sin…
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_Originally posted by @schristley in https://github.com/airr-community/airr-standards/pull/294#issuecomment-571331941_
> I've been thinking a bit about `DataProcessing`, specifically how we might g…
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Hi your webserver is down. Can you please fix this?
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I hope you're doing well. I recently came across your paper, 'TRUST4: immune repertoire reconstruction from bulk and single-cell RNA-seq data,' published in Nature Methods. I was highly impressed by t…