immunarch

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repExplore .col="aa" and .col="nt"

1

When using repExplore, I am unable to select the amino acid or nucleotide CDR3 columns- the output is always based on the "Sequence" column (total rows in the dataset). So,...

jmmontagne

repLoad issue with TRUST4 output

1

Hello!! I'm currently trying to use immunarch, however everytime I try to load my repertoire, I get the same error: == Step 1/3: loading repertoire files... == Error in if...

MartaSilvai3s

Support for cell hashing (10x data)

1

Hi all, Thanks for developing this very interesting and useful package. Am I correct in assuming there is no compatibility with demultiplexing cell hash data with TCR repertoire analysis (10x)...

CAC13

Error loading examples 10x Genomics filtered contig annotations data

1

Hello I am trying to load 10x Genomics filtered_contig_annotations.csv into Immunarch using the repLoad function. I kept getting an error trying to load my own data. I thought this was...

ewalsh3

BCR pipeline bugfixes

1

Fixes for NT and AA distances calculation

Alexander230

Remove non-productive sequences

2

Hello and thank you for your great work! I input my MIXCR files keeping the non-productive sequences using the command below: `int_load

anabbi

Visualization of rarefaction curves by a grouping variable causes system crash

2

## 🐛 Bug The generation of rarefaction curves using the `repDiversity` function with the option `.method = 'raref'` seems to work fine with a few datasets that I have tried....

canuckafar

unsupported format

1

Hi, I am trying to use immunarch (repLoad) with output data from ImReP and I am getting an error "unsupported format". The file is a csv file with the following...

Miriam-Zu

phylogenetic analysis with missing d_gene

5

Dear immunarch team, thank you for the user-friendly and highly useful package. After loading 10x VDJ data `filtered_contig_annotations.csv` via `repLoad`, I run into problems when running `repGermline` which is required...

mihem

repDiversity error

1

Hello, I am trying to run the following code but I get this error: ``` imm_raref

paulatn240