Which can be set to either “v2”, for backcompatibility or “v3”. Aįunction which is available for V3 as a new parameter “platypus.version” TheĬurrent functions and documentation can be found already at Īll other functions are already or in the process of being updated. Of the R package (v3.0) with special thanks to Victor Kreiner. The VDJ_GEX_matrix function will soon be found in the newest version
The change in clonotyping can be found here. Repertoire and transcriptome information at a per-cell level. This function integrates both repertoire and transcriptome informationĪnd will serve as the input to all secondary functions in future Platypus to revolve around the VDJ_GEX_matrix function (vgm for short). The core software can beĬurrent functions in development can be found at the functions branchĭue to the recent changes of the default clonotyping strategy inĬellranger (version 5 and version 6) we are currently rebuilding v3 of Package for single-cell sequencing (scSeq). Gene expression analysis relies heavily upon Seurat, a commonly used R ScSeq technologies assuming the input columns are added correctly. The functions could work with other barcode-based Package is designed to primarily analyze the output from 10x genomicsĬellranger (output from count for GEX and VDJ for enriched immune Repertoire (VDJ) sequencing data, in addition to integrating the twoĭata sets to combine phenotypic features with repertoire analysis. Used to separately analyze gene expression (GEX) or immune receptor Single-cell immune repertoire sequencing experiments. Platypus is a package designed to facilitate the analysis of
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