Ivarz / ConiferLinks
Calculate confidence scores from Kraken2 output
☆23Updated last year
Alternatives and similar repositories for Conifer
Users that are interested in Conifer are comparing it to the libraries listed below
Sorting:
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆64Updated 4 months ago
- Split k-mer analysis – version 2☆96Updated 2 weeks ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆32Updated this week
- A tool for removing redundant genomes from a set of assemblies☆77Updated last month
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- whole genome MLST analysis☆49Updated 4 months ago
- Recombination-free trees☆60Updated last month
- A new high-resolution long-read metagenome assembler for even noisy reads☆100Updated last month
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Graph-based assembly phasing☆87Updated 6 months ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆61Updated 8 months ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆41Updated last week
- Split Kmer Analysis☆65Updated 3 years ago
- Long read metagenomics practical at EBAME18☆18Updated 7 years ago
- Gene-flank analysis tool☆33Updated 10 months ago
- Identify short variants and structural variants from raw sequencing data or genomic sequences☆33Updated last year
- SeqSero2☆38Updated 3 weeks ago
- ☆36Updated 6 months ago
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆31Updated 3 months ago
- Mobile Genetic Elements Retrieving Tool☆16Updated 5 months ago
- Identify phage regions in bacterial genomes for masking purposes☆34Updated 6 years ago
- IslandPath standalone software☆33Updated last year
- Adapter trimmer for Oxford Nanopore reads using ab initio method☆52Updated 11 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆31Updated last month
- Creates a simple OTU table from Kraken2 report.☆12Updated last year
- Reference-free clustering and consensus forming of long-read amplicon sequencing☆59Updated 6 months ago
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Snakemake workflow for bacterial genome assembly + polishing for Oxford Nanopore (ONT) sequencing using multiple tools.☆27Updated last year