pirovc / multitax
Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)
☆42Updated 4 months ago
Alternatives and similar repositories for multitax:
Users that are interested in multitax are comparing it to the libraries listed below
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆56Updated last year
- TAXnomic Profile Aggregation and STAndardisation☆35Updated 3 months ago
- Scalable creating/updating of metagenome profiling databases☆59Updated 2 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆39Updated 2 months ago
- Find Unique genomic Regions☆29Updated 3 weeks ago
- Strain Resolution ON Graphs☆47Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 6 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated last year
- strain-level analysis tools☆34Updated 3 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 3 months ago
- A package to annotate protein sequences☆54Updated 6 months ago
- Recombination-free trees☆57Updated last year
- Phasing for metagenomics using PacBio long reads☆17Updated 3 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆40Updated 4 years ago
- Detection of incorrectly labeled sequences across kingdoms☆81Updated 2 years ago
- ☆44Updated last year
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated last year
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆31Updated 3 years ago
- Plasmid analysis using rearrangement distances☆31Updated 2 months ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆61Updated last month
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Toolkit for establishing, updating, and validating GTDB species clusters☆20Updated 2 months ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Gene-flank analysis tool☆26Updated last month
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Updated 10 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆58Updated 4 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- Detect contigs of complete circular genomes☆22Updated 5 years ago
- Estimate metagenomic coverage and sequence diversity☆47Updated 5 months ago