bioinfo-ut / PlasmidSeekerLinks
A k-mer based program for the identification of known plasmids from whole-genome sequencing reads
☆35Updated 4 years ago
Alternatives and similar repositories for PlasmidSeeker
Users that are interested in PlasmidSeeker 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
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- whole genome MLST analysis☆43Updated 2 weeks ago
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆25Updated 2 years ago
- ☆36Updated 3 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Recombination-free trees☆58Updated 3 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Order and orientation of complete bacterial genomes☆28Updated last week
- Identify phage regions in bacterial genomes for masking purposes☆32Updated 5 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- ☆20Updated 9 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence☆13Updated 7 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆29Updated 2 months ago
- tools for assessing the accuracy of genome assemblies☆34Updated last year
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- Gene Absence Presence Identification tool.☆26Updated 2 months 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
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Updated 2 years ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆28Updated 8 months ago
- Gene-flank analysis tool☆27Updated 6 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Intra-species bacterial contamination detection☆25Updated 4 months ago