shiraz-shah / VFCs
Code for de novo discovery of viral families in virome data
☆14Updated 9 months ago
Alternatives and similar repositories for VFCs:
Users that are interested in VFCs are comparing it to the libraries listed below
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomes☆16Updated 5 years ago
- Set of utilities on sequences and BAM files☆27Updated 3 years ago
- detect temperate phage (active prophage) in assembled bacterial genome sequences☆14Updated 3 years ago
- Prophage Activity Estimator☆26Updated 10 months ago
- ☆11Updated last year
- scripts for microbiome analysis☆11Updated 8 months ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 3 years ago
- Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences☆20Updated 3 months ago
- Microbial agile accurate SNP Typer☆29Updated last year
- Population genomics from metagenomes☆11Updated 7 months ago
- Scripts to quality control for metagenomic raw data, including removing the adapters, low quality reads, bases or PCR duplicates☆18Updated 4 years ago
- viralFlye pipeline☆18Updated 7 months ago
- ☆13Updated this week
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Find Prokaryotic DNA methylase genes in proteins, contigs, or genomes☆11Updated 9 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- This is graphanalyzer.py, a script designed to automatically interpret the outputs generated by vConTACT2 when using the INPHARED databas…☆18Updated last year
- Quality control plotting for long reads☆10Updated 10 months ago
- Trans-Kingdom Marker Gene Pipeline for Taxonomic Profiling of Human Metagenomes☆19Updated last year
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆31Updated 7 months ago
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆18Updated 2 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆27Updated last year
- ☆18Updated 2 years ago
- http://huttenhower.sph.harvard.edu/waafle☆13Updated 3 months ago
- This repository contains scripts used in the manuscript "Massive expansion of human gut bacteriophage diversity"☆20Updated 4 years ago
- Computation of average nucleotide identity with the use of MMseqs2☆13Updated 3 months ago
- ZGA prokaryotic genome assembly and annotation pipeline☆12Updated 6 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆23Updated 8 months ago
- A simple program to classify the lifestyle of phages.☆17Updated last year
- A Swiss-Army-Knife for Bioinformaticians☆12Updated last week