tseemann / seekaLinks
Get microbial sequence data easier and faster
☆28Updated 5 years ago
Alternatives and similar repositories for seeka
Users that are interested in seeka are comparing it to the libraries listed below
Sorting:
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆58Updated last year
- frame-shift correction for long-read (meta)genomics☆33Updated last year
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆25Updated 6 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 weeks ago
- Intra-species bacterial contamination detection☆25Updated 7 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated last week
- Automated strain separation of low-complexity metagenomes☆50Updated 3 years ago
- Colinear block visualisation tool☆31Updated last year
- Recombination-free trees☆60Updated 2 weeks ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated last year
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆52Updated 5 months ago
- Split Kmer Analysis☆65Updated 3 years ago
- Remove human reads from a sequencing run☆39Updated last month
- Genome size estimation from long read overlaps☆60Updated 2 weeks ago
- PLSDB pipeline to collect bacterial plasmids from NCBI☆38Updated 10 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 6 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- CFSAN Shigella Typing Pipeline☆15Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- ☆30Updated last year
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆45Updated 2 months ago
- Gene-flank analysis tool☆30Updated 9 months ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆57Updated last week