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Hi,
we are trying to use MiXCR with our single-cell WTA+TCR+BCR full length data.
We have 4 libraries (SampleTag+ABseq, WTA, TCR, BCR), and we pooled together 4 samples in 2 Illumina S4 lanes. So w…
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Hi!
Thanks for creating a great tool!
## Expected Result
I used [TakaRa] SMART-Seq Human TCR (with UMIs) to generate bulk TCR data and used your tool for analysis, but most of the results came…
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Traceback (most recent call last):
File "igscout-master/tandem_cdr3_finder.py", line 561, in
OutputDDMatrix(d_genes, all_ds, tandem_ds, os.path.join(output_dir, "dd_heatmap.pdf"), label)
F…
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Dear all, I am getting an error while using the repDiversity function with method set to raref, the issue is the same as https://github.com/immunomind/immunarch/issues/19, however I don't understand h…
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Hello,
I have this output for V spectratype for IGH chain from postanalysis module. I need help understanding this output.
* What is the number in the column along with the gene name?
Eg: "60…
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Hi, I'm newer to TCR analysis but most of the analyses that I see show Richness and Evenness in their analysis. I see that Immunarch can do Richness very easily with the chao1 but is there a way to s…
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I ran MIXCR on single cell data TCR data. After exportClones , I saw some rows with the same cell barcodes (tagValueCELL column) but different cloneId. This means one cell belongs to different clonoty…
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Hi,
If I have already aligned my reads against the human reference genome using Dragen, is it a good idea to first take reads with samtools that align to chr7 and chr14 , and then provide this as i…
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## 🚀 Feature
Let repLoad read the clone file that only has the header line.
## Motivation
In an experiment of several samples, some samples might have no clones found by mixcr or trust4. Ther…
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## 🐛 Bug
I get this error when I use repLoad(/path/to/mixcrclonesoutputfile.txt).
Error in strsplit(df[[.dalignments]], "|", TRUE, FALSE, TRUE) :
non-character argument
I recheck the data…