scwatts / hicap
in silico typing of the H. influenzae cap locus
☆12Updated 9 months ago
Alternatives and similar repositories for hicap:
Users that are interested in hicap are comparing it to the libraries listed below
- reference-based long read assemblies of bacterial genomes☆48Updated 3 years ago
- Recombination-free trees☆58Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆27Updated this week
- A pipeline for bioinformatics analysis of bacterial genomes☆22Updated 3 weeks ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 2 weeks ago
- Split Kmer Analysis☆63Updated 2 years ago
- Predict plasmids from uncorrected long read data☆39Updated 5 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last month
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated last year
- Intra-species bacterial contamination detection☆25Updated 2 months ago
- Order and orientation of complete bacterial genomes☆27Updated last year
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- Calculate Average Nucleotide Identity (ANI) for prokaryotic genomes☆19Updated 3 years ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆44Updated this week
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆27Updated 6 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆27Updated last year
- ☆52Updated 3 years ago
- Plasmid exploration of bacterial genomes☆18Updated 3 years ago
- List and download schemes from pubMLST.org and other BIGSDB servers☆10Updated 6 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 9 months ago
- Gene-flank analysis tool☆27Updated 4 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated this week
- Extract subsets of ONT (Nanopore) reads based on time☆21Updated 7 months ago
- mGEMS Genomic epidemiology with mixed samples☆16Updated 7 months ago