UriNeri / RVMTLinks
Code, scripts, some logs and general misc. from to the RNA viruses in MetaTranscriptome discovery project.
☆11Updated 2 years ago
Alternatives and similar repositories for RVMT
Users that are interested in RVMT are comparing it to the libraries listed below
Sorting:
- PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.☆27Updated 2 months ago
- ☆24Updated 9 months ago
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆59Updated last year
- PyO3 bindings and Python interface to sylph, an ultrafast method for containment ANI querying and taxonomic profiling.☆20Updated 10 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆25Updated last year
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆36Updated 10 months ago
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆32Updated last year
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆29Updated 2 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆38Updated 7 months ago
- A Pyrodigal extension to predict genes in giant viruses and viruses with alternative genetic code.☆20Updated 2 months ago
- SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.☆13Updated 3 years ago
- Metaphor: a general-purpose workflow for assembly and binning of metagenomes☆40Updated 11 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆55Updated 6 months ago
- ☆23Updated 2 years ago
- Fast implementation of KofamScan optimized for high-memory systems using PyHMMER☆14Updated last month
- codoff: a program to measure the irregularity of the codon usage for a single genomic region (e.g. a BGC, prophage, etc.) relative to the…☆13Updated last month
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆25Updated 3 months ago
- Discover and annotate the virome☆53Updated 2 weeks ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆26Updated 3 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆43Updated 6 months ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- Alignment against all pre-2019 bacteria on laptops within a few hours (former MOF-Search)☆39Updated last year
- A workflow and scripts for large-scale antiSMASH analyses☆44Updated 6 months ago
- Non-redundant pangenome assemblies from multiple genomes or bins☆13Updated 5 months 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
- Detect contigs of complete circular genomes☆23Updated 6 years ago
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆20Updated 2 years ago
- a python package for automated generation of phylogenetic trees from genbank files☆23Updated 7 months ago
- Genome size estimation from long read overlaps☆62Updated last month