Tandem Repeats Finder: a program to analyze DNA sequences
☆20Jul 30, 2025Updated 7 months ago
Alternatives and similar repositories for TRF-mod
Users that are interested in TRF-mod are comparing it to the libraries listed below
Sorting:
- a tool to evaluate long-read error correction mainly with PacBio High-Fidelity Reads (HiFi reads).☆21Dec 5, 2023Updated 2 years ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated 7 months ago
- SRF: Satellite Repeat Finder☆103Jan 8, 2024Updated 2 years ago
- Toolkit for VNTR genotyping and repeat-pan genome graph construction☆31Aug 18, 2025Updated 6 months ago
- Set of script for the paper on the cattle graph genome☆13Jan 10, 2023Updated 3 years ago
- RegCloser is a genome gap-closing tool based on the robust regression approach, which is conceptually applicable to de novo assembly of N…☆15Apr 22, 2024Updated last year
- T2Tools is a toolset contains several tools for T2T assembly, and it is under development.☆15Sep 17, 2025Updated 5 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated 6 months ago
- Pangenome graphs visualisation, distance computing, reconstruction of sequences and other utility functions☆36May 14, 2025Updated 9 months ago
- pangenome analyses for complete genomes of great apes (and gibbon)☆20Oct 12, 2024Updated last year
- Remove CCS reads with remnant PacBio adapter sequences and convert outputs to a compressed .fastq (.fastq.gz).☆104Jul 23, 2024Updated last year
- Call select base modifications in PacBio HiFi reads☆16Feb 25, 2026Updated last week
- Simple tools for working with Hi-C data☆18Dec 19, 2018Updated 7 years ago
- ☆18Jan 29, 2025Updated last year
- De novo tandem repeat calling from PacBio HiFi data☆19Dec 5, 2025Updated 2 months ago
- This repository contains relevant code and explanation for ”Leveraging a phased pangenome to design ideal haplotypes for hybrid potato br…☆34Oct 29, 2025Updated 4 months ago
- Genome-wide TR catalog and variation clusters described in [Weisburd, Dolzhenko, et al. 2024]☆17Feb 19, 2026Updated last week
- Generate pan-gene sets, given a collection of genome assemblies and corresponding gene models.☆20Feb 13, 2026Updated 2 weeks ago
- assembly evaluation tool☆35May 11, 2022Updated 3 years ago
- A module for improving the insertion sequences of structural variant calls☆33Jul 14, 2021Updated 4 years ago
- Dynamic Elongation of a Genome Assembly Path☆25Feb 25, 2026Updated last week
- Diamond2GO is a set of tools that can rapidly assign Gene Ontology (GO) terms and perform functional enrichment for large-scale functiona…☆26Feb 4, 2026Updated last month
- Tool for decomposition centromeric assemblies and long reads into monomers☆37Sep 17, 2022Updated 3 years ago
- Minimizer-based assembly scaffolding and mapping using long reads☆47Feb 4, 2026Updated 3 weeks ago
- Show pangenome graphs in an easy way☆59Aug 7, 2025Updated 6 months ago
- ksrates is a tool to position whole-genome duplications relative to speciation events using substitution-rate-adjusted mixed paralog-orth…☆22Jan 21, 2026Updated last month
- ☆16Jan 14, 2026Updated last month
- This pipeline is used to distinguish allotetraploid subgenomes.☆11Apr 8, 2024Updated last year
- PanEffect is a JavaScript framework to explore variant effects across a pangenome. The tool has two views that allows a user to (1) expl…☆13Jan 30, 2024Updated 2 years ago
- This is a method to find telomeres and centromeres in plants.☆42Jun 17, 2023Updated 2 years ago
- This toolkit deals with GEnomic sequence and genome structure ANnotation files between inbreeding lines and species.☆45Mar 2, 2023Updated 3 years ago
- Centromics: visualing centromeres with multiple omics data☆25Mar 4, 2025Updated last year
- ☆28Oct 20, 2023Updated 2 years ago
- Code repository for the T2T-Y paper☆24Jul 11, 2023Updated 2 years ago
- Everything but the kitchen sink☆12Feb 6, 2025Updated last year
- The complete sequence of a Chinese individual☆11Oct 8, 2024Updated last year
- a precise pangenome browser combining linear and graph-based pan-genome☆13Jul 16, 2024Updated last year
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 4 months ago
- MultiBreak-SV identifies structural variants from next-generation paired end data, third-generation long read data, or data from a combin…☆12Jul 19, 2016Updated 9 years ago