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A couple of questions that came up in an iReceptor Plus meeting today:
- From an ADC perspective, repertoire_ids are typically unique within a given context (in the ADC they are unique within a rep…
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## ❓ Questions and Help
We have a set of [listed tutorials available on the website](https://immunarch.com/articles/).
Hello, I am a Bioinformatician with iReceptor (https://gateway.ireceptor.org)…
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- [ ] Is the class an entity or a process? Is it an information entity about a material entity/process, or a pure information entity/process?
- [ ] Specify the ontology URI for class. Is there a hier…
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When I run the: trust-barcoderep-to-10X.pl function I only get one file. How could I get all my outputs for a sample to be the same as a 10X VDJ run and include the following standardly produced 10X f…
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Again, from Emily, sparked by our discussion at the Vocab/Ontology meeting...
We have been treating it solely as case and control, but never actively defined "case" - generally the studies we work …
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Hello, I have run the TRUST4 based on our bulk RNAseq cohort (PE150bp, ribo-zero), where fastq is input, but the results are not consistent with other immune metrics (GEP based). I want to optimize th…
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I ran this on a Repertoire of 4M sequences. Would you expect this? Repcred was set to downsample??? This ran on a compute node with 8GB of memory, so this tells me that the job used more than that for…
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This is a marker for the issues we discussed on the AIRR-SW-WG call today.
Some characteristics of real-world data sets:
- Many data sets do not cover the entire V-region. It's quite common today…
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In the recent SciTech meeting the topic around the family/subgroup -> gene -> allele mapping, relevant to Stats and other analysis was brought up. It would be beneficial for the iR+ groups to share th…
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Hi,
Thanks for this great tool and the great support you guys have provided here!
I had previously posted about running TRUST4 on multiplexed 10X 5' human PBMC scRNA-seq samples (https://github.…