JordyCoolen / easyseq_covid19Links
Pipeline to automatically analyse SARS-CoV-2 Whole genome sequencing Illumina data obtained using EasySeq SARS-CoV-2/COVID-19 Whole Genome Sequencing kit.
☆15Updated 3 years ago
Alternatives and similar repositories for easyseq_covid19
Users that are interested in easyseq_covid19 are comparing it to the libraries listed below
Sorting:
- Remove host contaminants from sequencing files☆9Updated 5 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆41Updated last year
- rapidly rid reads of horrid humans☆15Updated 3 years ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆38Updated 3 months ago
- Webin command line submission program.☆33Updated 2 weeks ago
- ☆26Updated 5 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆37Updated 2 months ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆20Updated last year
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆41Updated 2 months ago
- VarSkip multiplex PCR designs for SARS-CoV-2 sequencing☆14Updated 3 years ago
- deduplicate FASTA and FASTQ files☆23Updated 3 years ago
- Scripts and programs for the Holt Lab's MinION desktop☆32Updated 4 years ago
- CRyPTIC data processing pipelines☆34Updated last year
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆60Updated 2 years ago
- ☆31Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆46Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 4 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆59Updated 4 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- ASMNGS20 - 2020 Conference Details☆15Updated 3 years ago
- ☆36Updated 4 months ago
- Strip reads from Oxford Nanopore FAST5 files if they meet certain criteria☆14Updated 4 years ago
- Pan-Genomic Matching Statistics☆53Updated last year
- A Nextflow full-length 16S profiling pipeline for ONT reads☆25Updated last year
- Read mapping pipeline for detection and measurement of virus pathogens from metagenomic or clinical data☆32Updated last week
- Assembler for raw de novo genome assembly of long uncorrected reads.☆37Updated 5 years ago
- taxonomic classifier based on the kraken2 algorithms and more☆45Updated 2 months ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- A draft genome scaffolder that uses multiple reference genomes in a graph-based approach.☆44Updated 4 years ago