labgem / PlaScopeLinks
Plasmid exploration of bacterial genomes
☆23Updated 3 years ago
Alternatives and similar repositories for PlaScope
Users that are interested in PlaScope are comparing it to the libraries listed below
Sorting:
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Updated 4 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 7 months ago
- Order and orientation of complete bacterial genomes☆29Updated 6 months ago
- Whole genome core alignments from multiple draft genomes☆13Updated 9 years ago
- Recombination-free trees☆63Updated 4 months ago
- Identify phage regions in bacterial genomes for masking purposes☆33Updated 6 years ago
- A tool for removing redundant genomes from a set of assemblies☆78Updated 4 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Updated 3 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- plasmidVerify: plasmid contig verification tool☆15Updated 5 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated last week
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago
- This program is designed for annotation of antimicrobal resistance(AMR), transposon(Tn) and integron(In) in bacteria.☆21Updated 2 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆63Updated this week
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆32Updated 8 months ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆35Updated 2 years ago
- ☆20Updated last year
- Split Kmer Analysis☆67Updated 3 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 2 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆45Updated 5 months ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Archived - please see updated sccmec tool at link below☆13Updated last year
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆54Updated 2 months ago
- Downstream processing of VAMB binning for Viral Elucidation☆54Updated last year
- Comparisons of multiple different prophage predictions☆26Updated 3 years ago
- Prophage Activity Estimator☆30Updated last year
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆32Updated last month
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13Updated 3 years ago
- Calculate assocations between genes and traits☆29Updated 10 months ago