### Starting work with scRepertoire suppressMessages(library(scRepertoire)) suppressMessages(library(Seurat)) suppressMessages(library(tidyverse)) ### 1. Loading and Processing Contig Data # 1.1 filtered_contig_annotations.csv from 10X S_10X
This is great. One question is that can I keep the prefixes. The reason is that I run two samples, normal and disese, each hashtaged. Then I run 3 GEMs, one each for normal and disease, then the 3rd GEM has mixed 2 samples. When I analye the data, I first merged the data including the TCR data for normal from normal GEM and normal sample from mixed GEM, same to the disease sample. In this case, the prefixes are important to tell the cells (barcode). Any idea to analyze these merged data ( the prefixes also liked to the GEX data). Thank you very much.
the recomandation from the online tutorial is no prefixes, but you can try to see if you can run it with prefixes. Anohter possiblity is that you can add an column in your matadata to lable your sample information and use is it late to identify your samples.
### Starting work with scRepertoire
suppressMessages(library(scRepertoire))
suppressMessages(library(Seurat))
suppressMessages(library(tidyverse))
### 1. Loading and Processing Contig Data
# 1.1 filtered_contig_annotations.csv from 10X
S_10X
we love you 🥰
great! you are the best!
❤ thanks
This is great. One question is that can I keep the prefixes. The reason is that I run two samples, normal and disese, each hashtaged. Then I run 3 GEMs, one each for normal and disease, then the 3rd GEM has mixed 2 samples. When I analye the data, I first merged the data including the TCR data for normal from normal GEM and normal sample from mixed GEM, same to the disease sample. In this case, the prefixes are important to tell the cells (barcode). Any idea to analyze these merged data ( the prefixes also liked to the GEX data). Thank you very much.
the recomandation from the online tutorial is no prefixes, but you can try to see if you can run it with prefixes. Anohter possiblity is that you can add an column in your matadata to lable your sample information and use is it late to identify your samples.