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 )
☆66Updated 4 months ago
Alternatives and similar repositories for flextaxd
Users that are interested in flextaxd are comparing it to the libraries listed below
Sorting:
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 2 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Prediction of prophages from bacterial genomes☆78Updated last month
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- ☆83Updated last year
- Identify phage regions in bacterial genomes for masking purposes☆33Updated 5 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Improvement of metagenome-assembled genomes☆53Updated 5 years ago
- Estimate metagenomic coverage and sequence diversity☆54Updated 11 months ago
- A toolkit for prokaryotic comparative genomics☆49Updated 5 months ago
- a collection of scripts for organising bacterial genomes by species☆77Updated 3 years ago
- Microbiome classification pipeline☆66Updated 2 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☆46Updated 5 years ago
- IS mapping software☆55Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆46Updated 4 years ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- Split Kmer Analysis☆65Updated 3 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 4 months ago
- Phigaro is a scalable command-line tool for predicting phages and prophages☆52Updated last year
- A toolbox for improving metagenome-assembled genomes.☆63Updated 4 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Reorients assembled microbial sequences☆121Updated 3 months ago
- Scalable creating/updating of metagenome profiling databases☆61Updated 3 weeks ago
- 🦠📇 Microbial genomes-to-report pipeline☆58Updated 3 weeks ago
- whole genome MLST analysis☆45Updated last month
- Calculation of the Percentage of Conserved Proteins following Qin, Xie et al. 2014 but using DIAMOND instead of BLASTP for alignments.☆26Updated 2 months ago