gem-pasteur / PanACoTA
PANgenome with Annotations, COre identification, Tree and corresponding Alignments
☆73Updated last year
Alternatives and similar repositories for PanACoTA:
Users that are interested in PanACoTA are comparing it to the libraries listed below
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆60Updated last month
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆74Updated 5 months ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆45Updated last month
- post processing of bacterial pangenome gene presence/absence matrices☆59Updated 2 weeks ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆105Updated 2 weeks ago
- A pipeline for running AMRfinderPlus and collating results into functional classes☆75Updated 6 months ago
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆55Updated last week
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 10 months ago
- IS mapping software☆53Updated 3 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 10 months ago
- Reorients assembled microbial sequences☆113Updated last week
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 5 months ago
- Microbial Populations as Clusters Of Gene Transfer☆44Updated last year
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 8 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆44Updated last month
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆62Updated 5 months ago
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆63Updated 4 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆56Updated 2 weeks ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆42Updated last year
- ☆80Updated last year
- Binning Virus Genomes from Metagenomes☆61Updated 2 years ago
- Find endogenous viral elements in genomes☆12Updated last month
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆70Updated 3 years ago
- DDBJ Fast Annotation and Submission Tool☆79Updated 2 weeks ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆97Updated this week
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Split Kmer Analysis☆62Updated 2 years ago
- Precise host read removal☆90Updated 2 months ago