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Hi
We have used `Kit : 10X Genomics Next GEM Single Cell 5' v2 (Dual Index)` for `two healthy PBMCs` as a test experiment before investing on our main design
Now, for running the main experiment…
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Revisit Relative CopyNumber statements, as seen in cytogenetics resources and WRT X-chromosome abnormalities.
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In this first wave, we will define the minimal representation needed to encode SVs.
High-level design: two sub-components of SV-VRS. The first is a minimal representation that encodes the structura…
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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. @davidwedge @jcesar101 @sdentro
I have recently tested Battenberg on a paired sample, and it has taken approximately 14 hours. The log indicated that it was stuck at "Multi pos start: [1] "mi…
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Hi,
I ran Gubbins in 35 E. coli samples. I got around 14 samples with SNPs
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Ok, I had a closer look at the latest Rsubread version, and they have indeed changed syntax for how to tell it to to count raw reads (not fragments) in PE samples. And that is most likel…
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Hello,
I have a question about how the VDJs are assigned to the contigs.
I have a trust4_cdr3.out, and I can see for example for malignant cells in my data, there are multiple VDJs. How is this po…
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1. Identity of submitter is not captured - submitter unknown
2. new submissions should be 'curated' instead of 'queued'
3. 'make a duplicate' gives duplicates new RRID instead of the already existin…
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Add clone_id as field to accept from AVR.csv
Dependency:
This clone_id should have a value if the clonality column is monoclonal.
If the clonality field is polyclonal, then clone_id is blank/has…