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Hello,
I hope this post finds you well. I am excited to analyze BCRs using this package.
A little overview of what I am doing: I am trying to look into the clonotypes in one multiple myeloma samp…
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install_github("UCLouvain-CBIO/depmap")
info:
Warning: package 'dplyr' was built under R version 4.2.3
Cannot connect to ExperimentHub server, using 'localHub=TRUE' instead
Using 'localHub=TRUE'…
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Hi. I'm confused by some of the results.tsv file. What are the definitions of the count and frequency columns? My understanding is that frequency is the number of reads mapped to a CDR3 region divided…
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## Information
### Proposed change:
Add `TST` as option for required attribute `Single Nucleus Buffer`
Current valid values are : NIB, 10x, Omni
---
### Dicussion link:
Email from Allison Fr…
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Planned new vignette do document expected discrepancies between the cBio versions of genomic data vs genomic data on Synapse
* Data structure returned for CNA and fusions
* By default, cBioPortal …
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https://github.com/liulab-dfci/TRUST4/blob/91f1941e8073093e9e83d739adf7ffbc7901c745/scripts/trust-cluster.py#L205
What does `a.py` mean here?
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Hi, I would really like to use some of the functionality in immunarch.
I have TCR sequences from bulk RNA-sequencing data that I inferred with TRUST4 (https://github.com/liulab-dfci/TRUST4). Accord…
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Dear Intae Moon,
I would like to use the very interesting tool you developped in a prediction mode, and I would have some questions about the way SNV and CNV information has to be prepared.
Cou…
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I'm trying to follow the tutorial you have here: https://github.com/liulab-dfci/TRUST4#10x-genomics-data-and-barcode-based-single-cell-data
However, I'm not sure how to adapt my data.
I have R1…
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### Is there an existing issue for this?
- [X] I have searched existing issues
### Current Behavior
Follow the implementation of [DfciUiDisplayAuthDialog ](https://github.com/microsoft/mu_oem_sampl…