TREDPARSE: HLI Short Tandem Repeat (STR) caller
☆25Aug 20, 2020Updated 5 years ago
Alternatives and similar repositories for tredparse
Users that are interested in tredparse are comparing it to the libraries listed below
Sorting:
- Genotype and phase short tandem repeats using Illumina whole-genome sequencing data☆101Feb 27, 2023Updated 3 years ago
- a hidden Markov model to infer simple repeats from genome sequences☆37Feb 19, 2021Updated 5 years ago
- Scripts and utilities for analyzing tandem repeats (TRs).☆43Mar 12, 2026Updated last week
- ☆13Jan 23, 2020Updated 6 years ago
- A framework to annotate SVs with previous known SVs (vcf file) and or with genomic features (gff and or bed files)☆13Mar 12, 2018Updated 8 years ago
- Naive PCA for genotype data☆10Jul 27, 2016Updated 9 years ago
- Fast, Accurate, and Complete SSR Detection in Genomic Sequences☆11Jun 29, 2020Updated 5 years ago
- ☆14Dec 13, 2023Updated 2 years ago
- MrMosaic (Genomic Mosaic Structural Variant Caller)☆15Jul 21, 2017Updated 8 years ago
- ☆12Apr 21, 2023Updated 2 years ago
- Method for detecting STR expansions from short-read sequencing data☆63Dec 15, 2021Updated 4 years ago
- Pan gGnome Viewer☆10Jul 10, 2025Updated 8 months ago
- Tool to annotate outfiles from ExpansionHunter and TRGT with the pathologic implications of the repeat☆39Dec 15, 2025Updated 3 months ago
- Concordance and contamination estimator for tumor–normal pairs☆59Oct 22, 2024Updated last year
- A tool for sample swap identification in high throughput sequencing studies☆10Mar 4, 2025Updated last year
- ☆12May 2, 2025Updated 10 months ago
- Tools for identifying introgressed archaic sequence.☆12Jun 20, 2017Updated 8 years ago
- Visualization and annotation of CNVs from population-scale whole-genome sequencing data☆72Jan 8, 2018Updated 8 years ago
- Enhanced Artificial Genome Engine: next generation sequencing reads simulator☆33May 20, 2020Updated 5 years ago
- A tool for genotyping Variable Number Tandem Repeats (VNTR) from sequence data☆47Dec 6, 2024Updated last year
- Evaluation of phasing performance☆23Mar 6, 2018Updated 8 years ago
- Expanded STR algorithm for Illumina sequencing data☆23Sep 11, 2022Updated 3 years ago
- FLT3-ITD script based on in-silico extension and clustering☆14Jun 9, 2021Updated 4 years ago
- Rust binding for WFA2-lib☆10Jun 7, 2022Updated 3 years ago
- Ultra-efficient mapping-free structural variation genotyper☆20Jul 28, 2021Updated 4 years ago
- Mutation rate analysis of autosomal loci☆15Jun 25, 2020Updated 5 years ago
- R Package for performing Qst-Fst analyses☆21Nov 14, 2017Updated 8 years ago
- PopSTR - A Population based microsatellite genotyper☆32Oct 23, 2023Updated 2 years ago
- ☆26Aug 10, 2021Updated 4 years ago
- A tool for profiling long STRs from short reads☆105Apr 19, 2021Updated 4 years ago
- Deleterious mutation prediction pipeline☆13Dec 16, 2024Updated last year
- ☆17Dec 2, 2015Updated 10 years ago
- A comprehensive pipeline to analyze and visualize structural variants☆20Jan 28, 2020Updated 6 years ago
- VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.☆99May 21, 2024Updated last year
- SNP genotyping in polyploids☆16Aug 12, 2020Updated 5 years ago
- Split a BAM file by haplotype support☆16Dec 13, 2017Updated 8 years ago
- Generate kmers/minimizers/hashes/MinHash signatures, including with multiple kmer sizes.☆24Jan 9, 2021Updated 5 years ago
- predicting DFE and alpha from polymorphism data☆28Oct 4, 2018Updated 7 years ago
- ☆10Nov 18, 2022Updated 3 years ago