aldertzomer / RFPlasmid
Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf
☆48Updated 10 months ago
Alternatives and similar repositories for RFPlasmid:
Users that are interested in RFPlasmid are comparing it to the libraries listed below
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 4 months ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆20Updated last year
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆60Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Gene Absence Presence Identification tool.☆26Updated last year
- Downstream processing of VAMB binning for Viral Elucidation☆47Updated 7 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated last year
- ☆19Updated 5 months ago
- whole genome MLST analysis☆40Updated 9 months ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆42Updated this week
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆42Updated last year
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated 3 weeks ago
- post processing of bacterial pangenome gene presence/absence matrices☆55Updated 5 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆32Updated 3 years ago
- IslandPath standalone software☆31Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 9 months ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- ☆24Updated 6 years ago
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆44Updated 3 weeks ago
- Split Kmer Analysis☆63Updated 2 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Improvement of metagenome-assembled genomes☆51Updated 4 years ago
- MAGqual is a command line tool to evaluate the quality of metagenomic bins and generate recommended metadata in line with the MIMAG stand…☆13Updated 5 months ago
- code repo for mobileOG-db☆34Updated 3 weeks ago
- ☆48Updated 10 months ago
- Phage prediction tools☆15Updated last year