santa-dev / santa-simLinks
A forward-time simulator for gene sequences modeling a variety of mutation and selection processes.
☆20Updated 2 years ago
Alternatives and similar repositories for santa-sim
Users that are interested in santa-sim are comparing it to the libraries listed below
Sorting:
- Tutorial on Bayesian phylogenetic analysis☆47Updated 8 years ago
- Programmatically interact with the GISAID database.☆78Updated 2 months ago
- Efficient phylogenetic clustering of viral sequences☆89Updated this week
- Genome wide orthology inference and dNdS estimation☆96Updated last month
- Global phylogenies of SARS-CoV-2 sequences☆85Updated 2 years ago
- rhierbaps: R implementation of hierBAPS☆35Updated 4 years ago
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆52Updated last week
- ☆27Updated 5 years ago
- resources for bioinformatics education☆93Updated 5 months ago
- Rapid analysis and visualization of coronavirus genome variation☆48Updated last month
- Phylogenetic orthology inference for comparative genomics☆64Updated this week
- Java software to analyse phylogeny-trait correlations in discrete traits, accounting for phylogenetic uncertainty via posterior sampling.☆12Updated 8 years ago
- Time-resolved metagenomic sequencing of Lenski's long-term evolution experiment with Escherichia coli☆22Updated 6 years ago
- Reconstruction of transmission trees using genomic data☆63Updated 2 years ago
- Best-fit model selection☆85Updated last year
- Sydney Phylogenetics Workshop☆66Updated 3 months ago
- Reference-guided multiple sequence alignment of viral genomes☆70Updated 4 months ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated 3 months ago
- CLI tool to annotate genes with KOfam☆85Updated 2 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆66Updated last year
- ☆67Updated 9 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 4 months ago
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Updated 7 months ago
- create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks☆54Updated 2 months ago
- An R package designed for drawing gene arrow maps☆91Updated last month
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆50Updated 3 years ago
- Python tool to reduce size and redundancy of phylogenetic datasets☆46Updated 2 years ago
- Detection of incorrectly labeled sequences across kingdoms☆85Updated 3 years ago
- ARTIC SARS-CoV-2 workflow and reporting☆50Updated 6 months ago
- Protein Alignment and Detection Interface☆60Updated last year