GRAph-based Finding of Individual Motif Occurrences
☆33Aug 29, 2024Updated 2 years ago
Alternatives and similar repositories for GRAFIMO
Users that are interested in GRAFIMO are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A toolkit for exploring regions of variation in pangenomes☆15Jun 12, 2026Updated 2 months ago
- PAF (pairwise alignment format) validator based on extended CIGAR strings☆15Aug 10, 2025Updated last year
- ☆11Dec 9, 2022Updated 3 years ago
- GFA insert into GenomicSQLite☆49Jun 7, 2021Updated 5 years ago
- Enumerating bubbles in pangenome graphs☆16Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆46Oct 13, 2024Updated last year
- ☆19May 10, 2023Updated 3 years ago
- bash script to search for centromeric repeat patterns in PacBio data, using several current tools (trf and R)☆13Dec 1, 2016Updated 9 years ago
- ChIP-seq peak caller for reads mapped to a graph-based reference genome☆26Aug 17, 2024Updated 2 years ago
- A script to extract graph structure from multiple sequence alignment result and output as GFA/JSON for vg☆11Mar 27, 2019Updated 7 years ago
- convert variation graph alignments to coverage maps over nodes☆28Jan 21, 2026Updated 7 months ago
- Show pangenome graphs in an easy way☆61Aug 7, 2025Updated last year
- the we-flyin WFA-guided ultralong tiling sequence aligner☆10May 13, 2021Updated 5 years ago
- Genotyping lots of samples with big pangenomes☆11Oct 30, 2025Updated 10 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click. Zero configuration with optimized deployments.
- Identifying large scale inversions between two genomes by mapping genome 1's unique kmers onto genome 2.☆10Jun 6, 2025Updated last year
- ☆31Mar 27, 2024Updated 2 years ago
- GFA visualization tool - Rust reimplementation of odgi viz☆15May 2, 2026Updated 3 months ago
- convert CHAIN format to PAF format☆15Dec 17, 2024Updated last year
- the pangenome graph evaluator☆29Apr 12, 2021Updated 5 years ago
- ☆15Jun 29, 2021Updated 5 years ago
- A LaTeX package for drawing genetic construct pictograms using TikZ.☆12Jan 26, 2022Updated 4 years ago
- Lift-over alignments from variant-aware references☆34Mar 4, 2023Updated 3 years ago
- Genotyping of copy number sensitive allele-specific haplotypes☆29Updated this week
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- alignment to variation graph inducer☆165Jul 29, 2026Updated last month
- convert PAF format to CHAIN format☆36May 14, 2025Updated last year
- A C++ library and utilities for manipulating the Graphical Fragment Assembly format.☆56May 17, 2022Updated 4 years ago
- R integration for edlib, a C/C++ library for pairwise sequence alignment using edit distance (Levenshtein distance).☆11Jul 20, 2025Updated last year
- Extracts subgraphs or components from a graph in GFA format☆24Nov 18, 2024Updated last year
- Everything but the kitchen sink☆13Feb 6, 2025Updated last year
- PG-SCUnK mesure quality of Pan-Genome Graphs using Single Copy and Universal k-mers☆25Feb 16, 2026Updated 6 months ago
- Hidden Markov Model based Copy number caller☆20Jul 18, 2026Updated last month
- ☆18Jan 29, 2025Updated last year
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- ☆139Updated this week
- A plant organellar Graphical Fragment Assembly toolkit☆16Sep 10, 2025Updated 11 months ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆49Feb 23, 2021Updated 5 years ago
- 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
- a lexicographically-based GTF/GFF sorter☆39Aug 8, 2026Updated 3 weeks ago
- Refinements of the WFA alignment algorithm with better complexity☆26Mar 31, 2022Updated 4 years ago
- Translocator: local realignment and global remapping enabling accurate translocation detection using single-molecule sequencing long read…☆12Jan 22, 2020Updated 6 years ago