tyjo / coptr
Accurate and robust inference of microbial growth dynamics from metagenomic sequencing
☆19Updated 2 years ago
Alternatives and similar repositories for coptr:
Users that are interested in coptr are comparing it to the libraries listed below
- ☆16Updated 4 years ago
- A Hierarchical Approach to Pangenomics Inference☆11Updated 10 months ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆22Updated 2 years ago
- Binnacle: Using Scaffolds to Improve the Contiguity and Quality of Metagenomic Bins☆13Updated 3 years ago
- MAG Circularization Method☆33Updated 2 years ago
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- MAGScoT - a MAG scoring and refinement tool☆31Updated 4 months ago
- ☆16Updated 2 months ago
- Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs☆22Updated 7 months ago
- Prophage Activity Estimator☆26Updated 8 months ago
- ☆19Updated 3 years ago
- SameStr identifies shared strains between pairs of metagenomic samples based on the similarity of SNV profiles.☆17Updated 5 months ago
- ☆25Updated last year
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…☆43Updated this week
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆31Updated last year
- ViromeQC is a computational tool to benchmark and quantify non-viral contamination in VLP-enrihed viromes. ViromeQC provides an enrichmen…☆18Updated 2 years ago
- alignment-free coverage calculation for metagenomic binning >100 times faster☆39Updated 3 months ago
- Comparison pipeline for Prokaryote Protein Coding Gene Predictors☆22Updated 10 months ago
- PlasX, a machine learning classifier for identifying plasmid sequences based on genetic architecture☆32Updated 3 years ago
- Identify and remove contaminants from metagenome-assembled genomes☆18Updated last year
- KEGG Module Evaluation Tool☆28Updated last year
- Microbial agile accurate SNP Typer☆29Updated last year
- http://huttenhower.sph.harvard.edu/waafle☆11Updated 2 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆34Updated 3 weeks ago
- Automatic eukaryotic taxonomic classification☆28Updated 4 months ago
- ☆31Updated last year
- Identifying misassemblies via deep learning☆11Updated 9 months ago
- Population genomics from metagenomes☆11Updated 5 months ago