oschwengers / referenceseekerLinks
Rapid determination of appropriate reference genomes.
β99Updated last year
Alternatives and similar repositories for referenceseeker
Users that are interested in referenceseeker are comparing it to the libraries listed below
Sorting:
- A tool for removing redundant genomes from a set of assembliesβ78Updated 5 months ago
- PopPUNK π¨βπ€ (POPulation Partitioning Using Nucleotide Kmers)β103Updated this week
- PANgenome with Annotations, COre identification, Tree and corresponding Alignmentsβ80Updated 2 years ago
- a collection of scripts for organising bacterial genomes by speciesβ81Updated 3 years ago
- A pipeline for running AMRfinderPlus and collating results into functional classesβ91Updated 2 months ago
- Reorients assembled microbial sequencesβ132Updated 5 months ago
- post processing of bacterial pangenome gene presence/absence matricesβ63Updated 3 weeks ago
- IS mapping softwareβ57Updated 4 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencingβ68Updated 4 years ago
- Precise host read removalβ115Updated 5 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic treesβ94Updated 2 months ago
- A scalable bacterial genome assembly, annotation and analysis pipelineβ74Updated 2 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graafβ50Updated last year
- GTDB taxonomy taxdump files with trackable TaxIdsβ57Updated 9 months ago
- β84Updated 2 years ago
- Split Kmer Analysisβ67Updated 3 years ago
- A toolbox for pangenome analysis and threshold evaluation.β99Updated 3 years ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.β105Updated 3 weeks ago
- Fast k-mer based tool for multi locus sequence typing (MLST)β46Updated 5 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological dataβ47Updated 3 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.β49Updated 2 years ago
- Split k-mer analysis β version 2β104Updated 2 weeks ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing readsβ36Updated 5 years ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomesβ55Updated 3 months ago
- ClonalFrameML: Efficient Inference of Recombination in Whole Bacterial Genomesβ120Updated last year
- Ley Lab MetaGenome Profiler DataBase generatorβ49Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomesβ54Updated 2 years ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomiβ¦β67Updated 11 months ago
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignmentsβ108Updated 2 years ago
- Identify phage regions in bacterial genomes for masking purposesβ33Updated 6 years ago