metagentools / VStrains
VStrains is a de novo approach for reconstructing strains from viral quasispecies.
☆23Updated last month
Alternatives and similar repositories for VStrains:
Users that are interested in VStrains are comparing it to the libraries listed below
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆34Updated last month
- Pangenome Sequence Naming: a backwards-compatible hack to simplify the identification of samples and haplotypes in pangenomes☆37Updated 5 months ago
- Correcting errors in noisy long reads using variation graphs☆51Updated 2 years ago
- Code to create a PRG from a Multiple Sequence Alignment file☆24Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆50Updated 8 months ago
- ☆22Updated 7 months ago
- Haplotype-aware genome assembly toolkit☆29Updated 5 years ago
- Full-length de novo viral haplotype reconstruction from noisy long reads☆17Updated last year
- Extract metagenome-assembled genomes (MAGs) from metagenomic data using Hi-C.☆23Updated this week
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆33Updated 4 months ago
- Colinear block visualisation tool☆30Updated last year
- Differential k-mer analysis☆34Updated last year
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆25Updated 3 weeks ago
- Data analysis of Funannotate and Orthofinder outputs to Pangenome results☆19Updated 4 years ago
- Quality control plotting for long reads☆10Updated 10 months ago
- PSAURON is a machine learning model for rapid assessment of protein coding gene annotation☆31Updated last week
- Genome size estimation from long read overlaps☆51Updated 3 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- Multi-genome synteny block visualization tool☆32Updated 2 months ago
- VACmap: a long-read aligner specifically designed for complex structural variation discovery☆34Updated 4 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆33Updated last week
- ContScout sequence contamination filter tool☆20Updated 2 months ago
- Statistics and analysis for variation graphs☆39Updated 3 months ago
- Microbial agile accurate SNP Typer☆29Updated last year
- viralFlye pipeline☆18Updated 7 months ago
- Tool for assessing/improving assembly quality in extra-long tandem repeats☆46Updated 4 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…☆13Updated last year
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆23Updated 11 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated 2 weeks ago