Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
☆77Aug 30, 2016Updated 9 years ago
Alternatives and similar repositories for minidot
Users that are interested in minidot are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- In-depth characterization and annotation of differences between two sets of DNA sequences☆63May 18, 2020Updated 5 years ago
- Guided synteny alignment between duplicated genomes (within specified quota constraint)☆59Sep 5, 2017Updated 8 years ago
- A program to call variants from genome alignment☆82Apr 29, 2025Updated 10 months ago
- Reference genome quality scores☆20Dec 17, 2020Updated 5 years ago
- Chromosome-level scaffolding using multiple references☆165Sep 8, 2024Updated last year
- Genome assembly scaffolding using information from paired-end/mate-pair libraries, long reads, and synteny to closely related species.☆24Dec 6, 2018Updated 7 years ago
- Validate and edit small eukaryotic genome assemblies☆32Apr 28, 2023Updated 2 years ago
- A comparative genome scaffolding tool☆16Oct 6, 2018Updated 7 years ago
- A fast approximate aligner for long DNA sequences☆287Oct 11, 2024Updated last year
- Mikado is a lightweight Python3 pipeline whose purpose is to facilitate the identification of expressed loci from RNA-Seq data * and to s…☆109Jan 30, 2026Updated last month
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Sep 23, 2022Updated 3 years ago
- A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment☆87Apr 8, 2021Updated 4 years ago
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Sep 18, 2025Updated 6 months ago
- NGMLR is a long-read mapper designed to align PacBio or Oxford Nanopore (standard and ultra-long) to a reference genome with a focus on r…☆308Mar 18, 2024Updated 2 years ago
- Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets☆212Aug 21, 2024Updated last year
- A Circos-based tool to visualize genome assembly consistency or synteny between assemblies.☆90Nov 23, 2024Updated last year
- Long Reads Annotation pipeline☆73Mar 31, 2022Updated 3 years ago
- Assemblytics is a bioinformatics tool to detect and analyze structural variants from a genome assembly by comparing it to a reference gen…☆147Updated this week
- This tool is for users to upgrade their metagenomics assemblies using long reads. This includes fixing mis-assemblies and scaffolding/gap…☆13Mar 17, 2016Updated 10 years ago
- Robust Eukaryotic Annotation Toolkit☆17Feb 28, 2025Updated last year
- A simple and fast metassembler and assembly gap filler designed for long molecule based assemblies.☆209Nov 18, 2022Updated 3 years ago
- Long-reads Gap-free Chromosome-scale Assembler☆79Mar 21, 2023Updated 3 years ago
- Location of structural errors in a genome assembly and structural variations between a pair of genomes☆11Sep 27, 2019Updated 6 years ago
- Redbean: A fuzzy Bruijn graph approach to long noisy reads assembly☆531Sep 27, 2023Updated 2 years ago
- Peregrine: Fast Genome Assembler Using SHIMMER Index☆102Feb 6, 2022Updated 4 years ago
- A tool for recovering synteny blocks from multiple alignment☆32Oct 18, 2021Updated 4 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆188May 17, 2024Updated last year
- Haplotype-aware genome assembly toolkit☆30Jan 8, 2020Updated 6 years ago
- A tool to analyze synteny at the protein level.☆14Mar 28, 2018Updated 7 years ago
- Synteny and Rearrangement Identifier☆454Mar 17, 2026Updated last week
- Visualization tool for (meta)genome assembly graphs☆40Mar 18, 2026Updated last week
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes☆31Jun 16, 2024Updated last year
- Iterative error correction of long reads☆13Dec 9, 2022Updated 3 years ago
- RaGOO is no longer supported. Please use RagTag instead: https://github.com/malonge/RagTag☆174May 30, 2021Updated 4 years ago
- Create a tree using Mash distances☆184Oct 24, 2023Updated 2 years ago
- A collection of scripts for working with Hi-C data, Juicebox, and other genomic file formats☆69May 22, 2021Updated 4 years ago
- toolkit to process gtf files☆17Dec 24, 2021Updated 4 years ago
- A fuzzy Bruijn graph approach to long noisy reads assembly☆39Mar 15, 2017Updated 9 years ago
- BELLA: a Computationally-Efficient and Highly-Accurate Long-Read to Long-Read Aligner and Overlapper☆52May 16, 2022Updated 3 years ago