MDU-PHL / bohraView external linksLinks
A pipeline for bioinformatics analysis of bacterial genomes
☆32Updated this week
Alternatives and similar repositories for bohra
Users that are interested in bohra are comparing it to the libraries listed below
Sorting:
- Hybrid Assembler for Plasmids☆10Jul 28, 2022Updated 3 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year
- Download assembly files from NCBI☆13May 9, 2023Updated 2 years ago
- hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance☆22Mar 8, 2024Updated last year
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆26Nov 19, 2025Updated 2 months ago
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆12Jun 30, 2023Updated 2 years ago
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆62Jun 5, 2025Updated 8 months ago
- A taxonomic classifier of plasmids☆28Jul 7, 2021Updated 4 years ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19May 3, 2024Updated last year
- A pipeline for running AMRfinderPlus and collating results into functional classes☆91Dec 3, 2025Updated 2 months ago
- Reorients assembled microbial sequences☆132Aug 21, 2025Updated 5 months ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆50Apr 16, 2024Updated last year
- whole genome MLST analysis☆51Jun 13, 2025Updated 8 months ago
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆13Aug 26, 2024Updated last year
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆20Apr 20, 2023Updated 2 years ago
- Targeted Detection and Reconstruction of Plasmids☆22May 7, 2024Updated last year
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Assemble bacterial isolate genomes from Nanopore reads☆127Jan 22, 2025Updated last year
- Plasmid and antimicrobial resistance pipeline☆16Dec 30, 2024Updated last year
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆84Jan 24, 2026Updated 3 weeks ago
- Plasmid exploration of bacterial genomes☆23Mar 2, 2022Updated 3 years ago
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 2 months ago
- Bacterial taxonomy construction and evaluation in R☆15Jan 30, 2024Updated 2 years ago
- Genome-wide gene gain/loss mapping tool using DTL(Duplication-Transfer-Loss) reconciliation method☆17Dec 29, 2022Updated 3 years ago
- tool to determine optimal refrerence genome given a set of fasta files☆15May 18, 2023Updated 2 years ago
- Automated long-read first bacterial genome assembly tool implemented in Snakemake using Snaketool.☆147Jan 9, 2026Updated last month
- Host depletion optimised for clinical metagenomic sequencing applications☆16Nov 18, 2024Updated last year
- A tool for removing redundant genomes from a set of assemblies☆78Sep 10, 2025Updated 5 months ago
- Compute a pairwise SNP distance matrix from one or two alignment(s)☆26Sep 12, 2024Updated last year
- Intra-species bacterial contamination detection☆25Feb 5, 2026Updated last week
- µbinfie blog☆18Jul 21, 2025Updated 6 months ago
- Organism-specific interpretation of AMR genotypes☆15Mar 13, 2024Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Apr 26, 2025Updated 9 months ago
- CFSAN Shigella Typing Pipeline☆15Jul 6, 2023Updated 2 years ago
- Predict plasmids from uncorrected long read data☆41Oct 31, 2025Updated 3 months ago
- A simple pipeline for bacterial assembly and quality control☆16Jan 30, 2026Updated 2 weeks ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆36Feb 3, 2021Updated 5 years ago