MDU-PHL / bohra
A pipeline for bioinformatics analysis of bacterial genomes
☆19Updated 8 months ago
Alternatives and similar repositories for bohra:
Users that are interested in bohra are comparing it to the libraries listed below
- Genome size estimation from long read overlaps☆51Updated 3 months ago
- CFSAN Shigella Typing Pipeline☆14Updated last year
- tool to determine optimal refrerence genome given a set of fasta files☆14Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 5 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes☆18Updated last year
- software to identify primers that can distinguish genomes☆21Updated 2 months ago
- Intra-species bacterial contamination detection☆25Updated last month
- Generate basic stats for an assembly.☆11Updated 2 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆56Updated 2 weeks ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 8 months ago
- Colinear block visualisation tool☆30Updated last year
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆33Updated 6 months ago
- Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).☆26Updated 11 months ago
- µbinfie blog☆17Updated this week
- Remove human reads from a sequencing run☆38Updated 5 months ago
- ☆10Updated 4 years ago
- A script for comparing old vs new versions of genome annotations☆20Updated last year
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- NCBI Pathogen Detection Portal toolkit☆11Updated last year
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- ZGA prokaryotic genome assembly and annotation pipeline☆12Updated 6 months ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated 2 weeks ago
- Hybrid Assembler for Plasmids☆10Updated 2 years ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆23Updated 11 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated this week
- Bacterial taxonomy construction and evaluation in R☆13Updated last year
- Visualize microbial evolution at the SNP level!☆14Updated 4 months ago