dib-lab / 2018-ncbi-lineages
Extract lineage CSVs from NCBI for use with sourmash lca.
☆28Updated last year
Alternatives and similar repositories for 2018-ncbi-lineages:
Users that are interested in 2018-ncbi-lineages are comparing it to the libraries listed below
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆25Updated 10 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied ann…☆25Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- Toolkit for establishing, updating, and validating GTDB species clusters☆20Updated last week
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- De novo Extraction of Strains from MetAgeNomes☆68Updated 4 years ago
- Find Unique genomic Regions☆29Updated 3 weeks ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- Bacterial genomes finishing tool for structural insights on draft genomes☆24Updated last year
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆21Updated last year
- FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…☆24Updated 3 years ago
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago
- Gene-flank analysis tool☆27Updated 3 months ago
- OPAL: Open-community Profiling Assessment tooL☆28Updated 3 months ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- StrainEst - abundance estimation of strains☆21Updated 5 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆29Updated 9 months ago
- strain-level analysis tools☆36Updated 5 months ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- Influenza genome analysis Nextflow workflow☆22Updated last week
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 3 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 4 years ago
- Split Kmer Analysis☆63Updated 2 years ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 2 years ago