Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads

Detect novel (and reference) STR expansions from short-read data

Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat

STRspy: a novel alignment and quantification-based state-of-the-art method, short tandem repeat (STR) detection calling tool designed specifically for long-read sequencing reads such as from Oxford nanopore technology (ONT) and PacBio.

NanoRepeat: fast and accurate analysis of Short Tandem Repeats (STRs) from Oxford Nanopore sequencing data

Microsatellite genotyping

Computational, High-throughput Individual Identification through Microsatellite Profiling

A python package, command-line tool, and Shiny application to compare short tandem repeat (STR) profiles.

Supporting code for the microsatellite genotyping paper introducing CHIIMP

Allele-specific expression (ASE) for short tandem repeats (STRs)

🧬 A curated list of awesome resources for repeat DNA research

Detection and classfication of short tandem repeats in read data

🧬 recombination and mutation rates inference from polymorphisms (STRs, SNPs and INDELs) along the X chromosome