SysBioChalmers / HGTphyloDetect
HGTphyloDetect is a versatile toolbox to identify horizontal gene transfer (HGT) events combined with phylogenetic analysis.
☆36Updated 2 years ago
Alternatives and similar repositories for HGTphyloDetect:
Users that are interested in HGTphyloDetect are comparing it to the libraries listed below
- code repo for mobileOG-db☆34Updated 2 months ago
- Automatic evaluation of HGTs☆28Updated 2 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 5 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆55Updated 3 weeks ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆60Updated 2 months ago
- ☆20Updated 6 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆43Updated last year
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated last year
- Mobile Genetic Elements Retrieving Tool☆15Updated 3 years ago
- Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR p…☆14Updated 3 years ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆20Updated last year
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 11 months ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆59Updated last month
- Downstream processing of VAMB binning for Viral Elucidation☆48Updated 8 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆58Updated last month
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆46Updated 3 years ago
- ☆50Updated 11 months ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- Find endogenous viral elements in genomes☆12Updated last month
- whole genome MLST analysis☆41Updated this week
- ☆51Updated last year
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13Updated 2 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- Convert GFF, fastas, annotation table and species name into Genbank.☆14Updated 3 weeks ago
- PhyloFisher is a software package written in Python3 that can be used for the creation, analysis, and visualization of phylogenomic datas…☆31Updated last week
- ☆24Updated 6 years ago
- Horizontal gene transfer (HGT) identification pipeline☆57Updated last year
- Tool to estimate genome quality of microbial eukaryotes☆37Updated 2 months ago