oschwengers / tadrep
Targeted Detection and Reconstruction of Plasmids
☆20Updated 9 months ago
Alternatives and similar repositories for tadrep:
Users that are interested in tadrep are comparing it to the libraries listed below
- Finding regions of similarity between plasmids☆16Updated 2 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 7 months ago
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- software to identify primers that can distinguish genomes☆21Updated 3 weeks ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆12Updated 5 months ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆18Updated 9 months ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆15Updated 4 years ago
- pipeline for read mapping, snp calling and annotation for bacterial genomes☆12Updated 11 months ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆24Updated 10 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- Generate basic stats for an assembly.☆10Updated 2 years ago
- ☆10Updated 3 weeks ago
- In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data☆19Updated 9 months ago
- Plasmid analysis using rearrangement distances☆31Updated 3 months ago
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆27Updated this week
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆11Updated 8 months ago
- Pipeline detecting distant and putative novel insertion sequences in prokaryotic genomes☆9Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Genome size estimation from long read overlaps☆48Updated 2 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- Visualisation application for Klebsiella genotypes generated by Kleborate.☆9Updated 3 years ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 7 months ago
- TAXnomic Profile Aggregation and STAndardisation☆35Updated 3 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 4 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆30Updated 5 months ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated last year
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 7 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆22Updated 10 months ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆56Updated last month
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆43Updated this week