FOI-Bioinformatics / flextaxdLinks
FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomic databases (kraken2, ganon and more )
☆67Updated 6 months ago
Alternatives and similar repositories for flextaxd
Users that are interested in flextaxd are comparing it to the libraries listed below
Sorting:
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- ☆83Updated 2 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Microbiome classification pipeline☆65Updated 4 months ago
- A tool for removing redundant genomes from a set of assemblies☆76Updated last week
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 4 months ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆103Updated 5 months ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆44Updated last year
- ☆37Updated 3 years ago
- Estimate metagenomic coverage and sequence diversity☆54Updated last year
- Prediction of prophages from bacterial genomes☆79Updated 3 months ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- IS mapping software☆56Updated 3 years ago
- whole genome MLST analysis☆47Updated 3 months ago
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆45Updated 5 years ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- post processing of bacterial pangenome gene presence/absence matrices☆61Updated 6 months ago
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 6 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆61Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Scalable creating/updating of metagenome profiling databases☆62Updated 2 months ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated last year
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆56Updated last year
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆41Updated 4 years ago
- Long-read metagenomic analysis☆105Updated last year
- Graph-based assembly phasing☆87Updated 4 months ago