Arcadia-Science / prehgtLinks
A pipeline for lightweight screening of Eukaryotic genomes and transcriptomes for recent HGT
☆14Updated 2 months ago
Alternatives and similar repositories for prehgt
Users that are interested in prehgt are comparing it to the libraries listed below
Sorting:
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆44Updated 3 months ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆64Updated last week
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆31Updated last month
- Calculate assocations between genes and traits☆28Updated 7 months ago
- Recombination-free trees☆60Updated 2 months ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated 2 years ago
- BEAV: Bacterial Element Annotation reVamped☆72Updated 2 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 6 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆34Updated 2 years ago
- ☆20Updated last year
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 6 years ago
- Bacterial GWAS analysis☆45Updated last week
- Gene Absence Presence Identification tool.☆27Updated 7 months ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated 2 years ago
- A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…☆59Updated 9 months ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆78Updated last month
- ☆31Updated 2 years ago
- IslandPath standalone software☆33Updated last year
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆62Updated 8 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆51Updated last week
- Split Kmer Analysis☆65Updated 3 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Updated this week
- Order and orientation of complete bacterial genomes☆29Updated 3 months ago
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆63Updated 2 weeks ago
- Tool to estimate genome quality of microbial eukaryotes☆38Updated 3 months ago