Python3 module for running MUMmer and reading the output
☆33Mar 24, 2025Updated last year
Alternatives and similar repositories for pymummer
Users that are interested in pymummer are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- How many distinct k-mers are there in a sequence?☆11Feb 4, 2026Updated 8 months ago
- A rust-native port of wfa2lib☆14Aug 1, 2026Updated 2 months ago
- Fast and Memory Efficient Genome Sketching via HyperLogLog, HyperMinHash, UltraLogLog and ExaLogLog☆23Updated this week
- A genomic minhashing implementation in Rust☆100Jul 8, 2026Updated 3 months ago
- Annotation of cryptic transposon variants using Hidden Markov Models to detect conserved terminal features.☆10Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- Skiver: Reference-free quality control of (meta)genomic sequencing datasets using (k, v)-mer sketches☆13Aug 19, 2026Updated 2 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- maze: match visualizer☆10Oct 11, 2021Updated 5 years ago
- plane sweep filtering genome alignments☆24Sep 28, 2026Updated last month
- Sequence Bloom Trees with All/Some split☆11Oct 30, 2018Updated 8 years ago
- Gfapy: a flexible and extensible software library for handling sequence graphs in Python☆70Nov 13, 2025Updated 11 months ago
- Tearing through FASTA/Q sequences☆42Updated this week
- Bifrost graph gene caller.☆102Aug 31, 2026Updated 2 months ago
- Short Read Sequence Typing for Bacterial Pathogens☆153Jun 20, 2021Updated 5 years ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- ☆10Jun 9, 2025Updated last year
- Homology-based ANI estimation at unprecedented scales🦀☆25Oct 4, 2026Updated 3 weeks ago
- Wrapper script to concatenate, align, and construct phylogenetic trees of BUSCOs☆20Sep 18, 2019Updated 7 years ago
- MetagenOmic read Re-Assigner and abundance quantifier☆22Jun 24, 2026Updated 4 months ago
- A database for signatures of public genomic sources☆18Jul 18, 2026Updated 3 months ago
- Python scripts for Exploratory Data Analysis of Pacific Biosciences sequence data☆18Aug 13, 2014Updated 12 years ago
- A graph-inspired data structure for determining likely chains of sequences from breadcrumbs of evidence☆17Jun 29, 2021Updated 5 years ago
- Pipeline to phase a genome into two homeologous subgenomes. Parental genomes are required.☆10May 22, 2025Updated last year
- Viral genome coverage evaluation for metagenomic diagnostics☆27Jul 9, 2026Updated 3 months ago
- 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.
- ganon2 classifies genomic sequences against large sets of references efficiently, with integrated download and update of databases (refse…☆109Oct 23, 2026Updated last week
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆41Aug 7, 2026Updated 2 months ago
- A Rust implementation of SSHash☆20Oct 19, 2026Updated last week
- Minimum plain text representation of kmer sets☆20Jan 30, 2025Updated last year
- NovoGraph: building whole genome graphs from long-read-based de novo assemblies☆46Feb 23, 2021Updated 5 years ago
- SALSA: A tool to scaffold long read assemblies with Hi-C data☆189May 17, 2024Updated 2 years ago
- Ultrafast identification of signature sequences in microbial genomes☆26Updated this week
- Python3 scripts to manipulate FASTA and FASTQ files☆73Mar 24, 2025Updated last year
- Space-efficient pseudoalignment with a colored de Bruijn graph☆59Mar 13, 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.
- Alternative taxonomic consensus algorithms based on the NCBI taxonomy tree☆17May 29, 2024Updated 2 years ago
- A library for efficient nucleotide sequence manipulation using 2-bit encoding☆12Sep 28, 2026Updated last month
- Compute bottom-s sketches and s-buckets sketches, using simd-minimizers crate.☆21Aug 26, 2026Updated 2 months ago
- LogLog space version of MinHash by combining ideas from HyperLogLog and b-bit MinHash☆57Feb 19, 2020Updated 6 years ago
- A bit-packed k-mer representation (and relevant utilities) for rust☆47Jun 26, 2024Updated 2 years ago
- Remove human reads from a sequencing run☆53Jun 29, 2026Updated 4 months ago
- Predict genic elements as splice sites, exons or genes, along eukaryotic DNA sequences☆18Jul 18, 2026Updated 3 months ago