MDU-PHL / bohraLinks
A pipeline for bioinformatics analysis of bacterial genomes
☆29Updated last month
Alternatives and similar repositories for bohra
Users that are interested in bohra are comparing it to the libraries listed below
Sorting:
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- Intra-species bacterial contamination detection☆25Updated 4 months ago
- Recombination-free trees☆58Updated 3 months ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 2 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Genome size estimation from long read overlaps☆57Updated 2 months ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Calculate assocations between genes and traits☆23Updated 3 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- ⚡️🧬 FastMLST: A multi-core tool for multilocus sequence typing of draft genome assemblies☆24Updated 4 months ago
- Interpretative standards for AMR genotypes☆21Updated 2 weeks ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 3 weeks ago
- Remove human reads from a sequencing run☆40Updated 8 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆19Updated 2 years ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆25Updated 8 months ago
- UPHL's Reference Free Pipeline☆26Updated last month
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆36Updated 3 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last month
- Identify phage regions in bacterial genomes for masking purposes☆32Updated 5 years ago
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 8 months ago
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆22Updated 3 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Colinear block visualisation tool☆31Updated last year
- Gene-flank analysis tool☆27Updated 6 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆28Updated 8 months ago