ktmeaton / ncov-recombinantLinks
Reproducible workflow for SARS-CoV-2 recombinant sequence detection.
☆18Updated 2 years ago
Alternatives and similar repositories for ncov-recombinant
Users that are interested in ncov-recombinant are comparing it to the libraries listed below
Sorting:
- SARs-CoV-2 Primer schemes☆16Updated 7 months ago
- Interactive phylogenetic tree viewer/editor☆48Updated 2 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆45Updated 2 weeks ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 3 months ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Updated last year
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆25Updated 2 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 2 months ago
- Main development repository for SpreadGL☆20Updated last year
- NCBI taxonomic identifier (taxid) changelog, including taxids deletion, new adding, merge, reuse, and rank/name changes.☆28Updated 8 months ago
- ☆29Updated 4 years ago
- ☆23Updated 10 months ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆41Updated last year
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆28Updated 5 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆18Updated last year
- Output FASTQ summary statistics in JSON format☆29Updated 3 years ago
- Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads☆64Updated last year
- TAXnomic Profile Aggregation and STAndardisation☆41Updated last month
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Updated 5 months ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆38Updated this week
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆35Updated last month
- InterARTIC - An interactive local web application for viral whole genome sequencing utilising the artic network pipelines..☆31Updated 2 years ago
- Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of viral pathogens of concern, es…☆41Updated last year
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Updated 3 weeks ago
- strain-level analysis tools☆39Updated last year
- Reference-guided multiple sequence alignment of viral genomes☆70Updated 2 months ago
- BigSeqKit: a parallel Big Data toolkit to process FASTA and FASTQ files at scale☆56Updated 2 years ago
- Microbial Genome Circular plotting tool for comparative genomics using Circos☆38Updated 2 years ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆27Updated 5 months ago