Background | Basic usage | Tree classes | Understanding Radix Trees | Hamming distance search | Anchored alignment searches | Custom distance searches and affine gap alignment | StarTree for fixed DNA self-joins | StarTree anchored mode for fixed anchored self-joins | StarTree Hamming mode for fixed same-length joins | References

Why use fraq? | Quick start | Pre-built functions | Walkthroughs with synthetic data | Summarization | quick-look QC plots | Splitting | Modification | Supported formats | Extension system: flow graph overview | Extension system: writing a custom kernel in R | Extension system: writing a custom kernel with Rcpp | Some important tips when building custom kernels | Streaming with named pipes | Tuning and threading | FRAQ file format | Session information

Installation | Benchmark | Currently implemented functions | Extensibility

Installation | Converting qs2 to RDS | Validating file integrity | Bindings to ZSTD compression library | In memory compression and decompression | File compression | zstd_in and zstd_out | The qdata format | Usage in C/C++ | qdata-cpp external wrappers | Global Options for qs2

A package for making glow-y plots | Gallery | Installation | Some advantages over traditional techniques | Usage | ggplot example using the diamonds dataset | Writing a raster image directly