christophertbrown / iRepLinks
scripts for estimating bacteria replication rates based on population genome copy number variation
☆72Updated 5 years ago
Alternatives and similar repositories for iRep
Users that are interested in iRep are comparing it to the libraries listed below
Sorting:
- Improvement of metagenome-assembled genomes☆53Updated 5 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆45Updated 5 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 4 months ago
- ☆53Updated 2 months ago
- Estimate metagenomic coverage and sequence diversity☆54Updated last year
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆60Updated 6 years ago
- Split Kmer Analysis☆65Updated 3 years ago
- A toolbox for improving metagenome-assembled genomes.☆62Updated 4 years ago
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆52Updated last month
- Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at …☆31Updated 5 years ago
- A tool for removing redundant genomes from a set of assemblies☆76Updated last week
- PANgenome with Annotations, COre identification, Tree and corresponding Alignments☆74Updated last year
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- GraftM - Rapid community profiles from metagenomes☆45Updated last year
- IS mapping software☆56Updated 3 years ago
- Convert GTDB taxonomy to NCBI taxdump format☆73Updated 2 years ago
- ☆24Updated 6 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆49Updated last year
- Prediction of prophages from bacterial genomes☆79Updated 3 months ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆44Updated last month
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆44Updated last year
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆62Updated last week
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆34Updated 2 years ago
- Horizontal gene transfer (HGT) identification pipeline☆62Updated 2 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆87Updated last year
- post processing of bacterial pangenome gene presence/absence matrices☆61Updated 6 months ago
- ☆40Updated 4 years ago