Platypus and PlatypusDB vignettes

Here we provide a comprehensive overview of the functions of the Platypus package in form of concise vignettes by topic. If you are new to Platypus we suggest to go through in order. As Platypus included many wrapper functions employing Seurat for GEX analysis, please also refer to the correspdonding. documentation.

Quick start

VDJ GEX matrix

PlatypusDB

Clonotyping

VDJ-GEX integration

AIRR compatibility

Echidna

Antibody Forests

Phylogenetic trees

Bulk repertoires

GEX Pseudo bulk

TCR lookup and specificity

Diversity and sampling

Sequence Kmers

VDJ dynamics

Receptor-Ligand interactions

ProjecTILs and pseudotime

Machine learning

Steropodon

Structural modelling

Spatial transcriptomics

More to come soon...