iqbal-lab-org / clockworkLinks
CRyPTIC data processing pipelines
☆34Updated last year
Alternatives and similar repositories for clockwork
Users that are interested in clockwork are comparing it to the libraries listed below
Sorting:
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 5 years ago
- A versatile toolkit for k-mers with taxonomic information☆82Updated 5 months ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆41Updated last year
- A small bash script that automates sweeping Guppy parameters in an attempt to optimise basecalling rate☆30Updated 3 years ago
- Select primer sets for selective whole genome amplification (SWGA)☆33Updated 6 years ago
- ☆84Updated 2 years ago
- Pan-Genomic Matching Statistics☆55Updated last year
- More realistic simulator for genomic DNA sequences from Illumina machines that achieves a similar k-mer spectrum as the original☆51Updated 3 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆68Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆51Updated 4 years ago
- hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.☆69Updated 2 months ago
- Split Kmer Analysis☆67Updated 3 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- A scalable bacterial genome assembly, annotation and analysis pipeline☆74Updated 2 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 7 months ago
- Standard database for the TBProfiler tool☆31Updated 5 months ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated 2 weeks ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- ☆37Updated 3 weeks ago
- tools for assessing the accuracy of genome assemblies☆35Updated last year
- A tool for removing redundant genomes from a set of assemblies☆78Updated 4 months ago
- Pipeline to generate NGS reads from a phylogeny☆39Updated 3 years ago
- Split k-mer analysis – version 2☆104Updated last week
- 🔗Genome assembly scaffolder using minimizer graphs☆85Updated last year
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆21Updated 2 years ago
- Remove lambda phage reads from a fastq file☆29Updated 3 years ago
- ☆30Updated last year
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆24Updated 6 years ago