ablab / plasmidVerify
plasmidVerify: plasmid contig verification tool
☆13Updated 4 years ago
Alternatives and similar repositories for plasmidVerify:
Users that are interested in plasmidVerify are comparing it to the libraries listed below
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated last year
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated 2 years ago
- ☆20Updated 7 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last month
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 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
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 5 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated last month
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 6 months ago
- Recombination-free trees☆57Updated 2 weeks ago
- A pipeline for bioinformatics analysis of bacterial genomes☆20Updated last week
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆33Updated last month
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆20Updated last year
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆22Updated last year
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 6 years ago
- Calculate assocations between genes and traits☆23Updated last month
- Intra-species bacterial contamination detection☆25Updated 2 months ago
- viralFlye pipeline☆18Updated 8 months ago
- IslandPath standalone software☆31Updated last year
- EzAAI - High Throughput Prokaryotic AAI Calculator☆39Updated 6 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆33Updated 3 years ago
- Bacterial taxonomy construction and evaluation in R☆13Updated last year
- whole genome MLST analysis☆41Updated 2 weeks ago
- Downstream processing of VAMB binning for Viral Elucidation☆49Updated 9 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated this week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆21Updated 2 years ago