"mixcr" - MiXCR (the "all" files) of any version. "immunoseq" - ImmunoSEQ of any version. The first column should contain base names of files without extensions inĬurrently, Immunarch support the following formats: It can have any number of additional columns with arbitrary names. The metadata has to be a tab delimited file with first column named "Sample". Set TRUE to get coding-only clonotypes (by defaul). The metadata file will have additional columns specifyingĬell and chain types for different samples.modeĮither "single" for single chain data or "paired" for paired chain data.Ĭurrently "single" works for every format, and "paired" works only for 10X Genomics data.īy default, 10X Genomics data will be loaded as paired chain data, and other files will be loaded as single chain dingĪ logical value. R data frames with only one type of chain and cell presented. (for example, like in 10xGenomics repertoire files), such repertoire files will be splitted to different If input data has multiple chains or cell types stored in the same file
Sample names and returns a list with two elements "data" and "meta". If the metadata file "metadata.txt" is not presented, then the repLoad creates a dummy metadata file with "meta" is a data frame with the metadata. "data" is an another list with repertoire R ames. If the metadata file if presented, then the repLoad returns a list with two elements "data" and "meta". a path to the folder with repertoire files and, if available, metadata file "metadata.txt". Same as in the case with no metadata file presented in the next section below
A character string specifying the path to the input data.
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