k-mer similarity analysis pipeline
☆21Nov 20, 2025Updated 3 months ago
Alternatives and similar repositories for kmermaid
Users that are interested in kmermaid are comparing it to the libraries listed below
Sorting:
- a toolset for efficient analysis of 10X Genomics linked read data sets, in particular for de novo assembly☆15Nov 27, 2019Updated 6 years ago
- run-length BWT tools for genomic sequences☆19May 19, 2022Updated 3 years ago
- Dynamic programming for aa-to-nt alignment with affine gap, splicing and frameshift☆19Sep 30, 2024Updated last year
- Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.☆11Jul 8, 2025Updated 7 months ago
- Hidden Markov Model based Copy number caller☆20Dec 9, 2025Updated 2 months ago
- ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.☆21Sep 1, 2021Updated 4 years ago
- Docker containers for bioinformatics with a small footprint☆23Dec 18, 2025Updated 2 months ago
- ☆12Nov 23, 2020Updated 5 years ago
- CAGE-sequencing analysis pipeline with trimming, alignment and counting of CAGE tags.☆11Updated this week
- Config files used to define parameters specific to compute environments at different Institutions☆107Updated this week
- Minimizer-based assembly scaffolding and mapping using long reads☆47Feb 4, 2026Updated last month
- Population-scale detection of non-reference sequence variants using colored de Bruijn Graphs☆26Apr 29, 2024Updated last year
- SaffronTree: Reference free rapid phylogenetic tree construction from raw read data☆25Jun 11, 2020Updated 5 years ago
- nimble aligner that will map your reads to the references on a laptop☆11Jun 29, 2017Updated 8 years ago
- ProphAsm – a rapid computation of simplitigs directly from k-mer sets☆25Feb 17, 2023Updated 3 years ago
- ☆26Aug 10, 2021Updated 4 years ago
- ☆22Oct 6, 2023Updated 2 years ago
- A VSCode extension pack for nf-core developers.☆15Mar 7, 2025Updated 11 months ago
- Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]☆11Mar 6, 2024Updated 2 years ago
- The final version 2 release of our software to detect core genes in eukaryotic genomes☆29Mar 31, 2015Updated 10 years ago
- perSVade: personalized Structural Variation detection☆41Jan 22, 2026Updated last month
- SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data☆42Apr 7, 2022Updated 3 years ago
- Variant call verification☆16May 12, 2025Updated 9 months ago
- 🧬 🦀 A fast and efficient tool to perform a genome wide Single cell Chromatin State Analysis using multimodal histone modification data.…☆30Sep 9, 2021Updated 4 years ago
- Allele-Specific Quantification of Structural Variations in Cancer Genomes☆18Mar 5, 2019Updated 7 years ago
- ABLE - Approximate Blockwise Likelihood Estimation☆17Jul 4, 2018Updated 7 years ago
- A lightweight, alignment-free utility for detecting repeat-containing reads in short-read WGS, WES and RNA-seq data.☆18Jan 16, 2026Updated last month
- 10x Genomics Reads Simulator☆46Dec 26, 2023Updated 2 years ago
- PopSTR - A Population based microsatellite genotyper☆32Oct 23, 2023Updated 2 years ago
- PISCES is a pipeline for rapid transcript quantitation, genetic fingerprinting, and quality control assessment of RNAseq libraries using …☆30Jun 17, 2025Updated 8 months ago
- BED QC tool (in the making)☆18Aug 19, 2022Updated 3 years ago
- Tools for haplotype-wise reconstruction of pseudomolecules☆22Sep 5, 2025Updated 6 months ago
- PBSIM2: a simulator for long read sequencers with a novel generative model of quality scores☆74Jul 22, 2023Updated 2 years ago
- Pipeline for the identification of (coding) gene structures in draft genomes.☆36May 9, 2024Updated last year
- De Bruijn graph construction for large k.☆17Aug 31, 2021Updated 4 years ago
- extract MSAs from genome variation graphs☆34Sep 20, 2020Updated 5 years ago
- Reduction of Althaps and Duplicate Contigs for Improved Hi-C Scaffolding☆20Mar 3, 2025Updated last year
- Fast and memory-efficient sequencing error corrector☆94Jan 4, 2026Updated 2 months ago
- Nextflow language support for Visual Studio Editor☆37Feb 27, 2026Updated last week