OLF-Bioinformatics / VariantDetectiveLinks
Identify short variants and structural variants from raw sequencing data or genomic sequences
☆32Updated last year
Alternatives and similar repositories for VariantDetective
Users that are interested in VariantDetective are comparing it to the libraries listed below
Sorting:
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆61Updated 3 months ago
- Bacterial GWAS analysis☆43Updated last month
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆30Updated 10 months ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Graph-based assembly phasing☆87Updated 4 months ago
- Recombination-free trees☆60Updated 2 weeks ago
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago
- Bifrost graph gene caller.☆95Updated 11 months ago
- whole genome MLST analysis☆47Updated 3 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆39Updated 3 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆58Updated last year
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Updated 3 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 4 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆61Updated last year
- Gene-flank analysis tool☆30Updated 9 months ago
- post processing of bacterial pangenome gene presence/absence matrices☆61Updated 6 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆39Updated last month
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- IslandPath standalone software☆33Updated last year
- A tool for removing redundant genomes from a set of assemblies☆76Updated last week
- Calculate assocations between genes and traits☆25Updated 6 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Discover and annotate the virome☆49Updated 3 weeks ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆49Updated last week
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆27Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆30Updated last month
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆53Updated 2 months ago