lczech / gappaLinks
A toolkit for analyzing and visualizing phylogenetic placement data
☆62Updated 7 months ago
Alternatives and similar repositories for gappa
Users that are interested in gappa are comparing it to the libraries listed below
Sorting:
- Massively parallel phylogenetic placement of genetic sequences☆84Updated 3 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- StaG Metagenomic Workflow Collaboration☆28Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆66Updated 3 years ago
- BEAV: Bacterial Element Annotation reVamped☆68Updated 3 weeks ago
- SHallow shOtGUN profiler☆53Updated 3 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- starfish: a modular toolkit for giant mobile element annotation☆31Updated 9 months ago
- Bifrost graph gene caller.☆95Updated 11 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- a UNIX shell toolkit for processing and analyzing multiple sequence alignments and phylogenies☆74Updated last month
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Using ggtree to build phylogenetic trees☆49Updated 10 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆76Updated 9 years ago
- Recombination-free trees☆60Updated 2 weeks ago
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 4 months ago
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆20Updated 4 years ago
- Rapid and scalable homolog identification for bacterial genomes☆33Updated 6 years ago
- Add new taxa or taxonomic groups to the NCBI Taxdump files☆20Updated 5 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆53Updated 2 months ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 10 months ago
- ☆83Updated 2 years ago
- Collection of scripts for bacterial genomics☆48Updated 5 years ago
- Gene-flank analysis tool☆30Updated 9 months ago
- De novo Extraction of Strains from MetAgeNomes☆70Updated 5 years ago
- Visualize whole genome alignments as linear maps☆73Updated last month
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆55Updated 3 years ago