lenaschimmel / sc2rfLinks
SARS-Cov-2 Recombinant Finder for fasta sequences
☆49Updated 3 years ago
Alternatives and similar repositories for sc2rf
Users that are interested in sc2rf are comparing it to the libraries listed below
Sorting:
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆33Updated last week
- Utility to alias and dealias pango lineages☆22Updated last year
- Cluster Investigation & Virus Epidemiology Tool☆50Updated last month
- ☆49Updated 3 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated 3 weeks ago
- Rapid determination of appropriate reference genomes.☆98Updated 5 months ago
- Recombination-free trees☆58Updated 3 months ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Updated last week
- Phylogenetics between and within hosts at once, all along the genome.☆49Updated 9 months ago
- SC2 variant detection and composition pipeline☆17Updated 2 years ago
- Metagenomic Analysis in Real Time☆24Updated last week
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- Bacterial surveillance pipeline.☆24Updated last month
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆19Updated 2 months ago
- SARs-CoV-2 Primer schemes☆16Updated 2 months ago
- ☆36Updated 3 months ago
- ☆49Updated 2 months ago
- Small collection of tools for performing quality control on coronavirus sequencing data and genomes☆48Updated last year
- Primer schemes for real-time genome epidemiology☆29Updated 2 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆90Updated last week
- Reconstruction of transmission trees using genomic data☆63Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆64Updated 2 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated 3 months ago
- app to collapse Pango lineages for reporting☆13Updated last year
- Depth-weighted De-Mixing☆116Updated this week
- Precise host read removal☆102Updated last month
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆31Updated last month
- post processing of bacterial pangenome gene presence/absence matrices☆60Updated 4 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago