Tandem repeat expansion detection or genotyping from long-read alignments
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Updated
Sep 26, 2024 - Python
Tandem repeat expansion detection or genotyping from long-read alignments
Toolkit for VNTR genotyping and repeat-pan genome graph construction
Typing of Clostridioides difficile isolates using NGS data (reads and contigs) based on tandem repeat loci (TR6, TR10), and toxin genes (cdtA, cdtB, tcdA, tcdB, tcdC).
TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain
WebSTR-API: programmatic access to WebSTR, database of Human genome-wide variation in Short Tandem Repeats (STRs)
A python library for decomposing and visualizing tandem repeat sequences
RPTRF: A Rapid Perfect Tandem Repeat Finder Tool for DNA Sequences
Computational, High-throughput Individual Identification through Microsatellite Profiling
Discover VNTR-associated DELs that are hard to find using Illumina reads
Universal STR Allele Toolkit (USAT) for viewing and comparison
nPoRe: n-Polymer Realigner for improved pileup-based variant calling
🧬 A curated list of awesome resources for repeat DNA research
Targeted characterisation of short structural variation.
Looper is an ultrafast DNA tandem repeat identification tool which works on basic arithmetic rules.
Supporting code for the microsatellite genotyping paper introducing CHIIMP
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