ryanmelnyk / PyParanoid
Rapid and scalable homolog identification for bacterial genomes
☆32Updated 5 years ago
Alternatives and similar repositories for PyParanoid
Users that are interested in PyParanoid are comparing it to the libraries listed below
Sorting:
- Estimate metagenomic coverage and sequence diversity☆52Updated 9 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated 2 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆47Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- Split Kmer Analysis☆64Updated 2 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆45Updated 5 years ago
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆81Updated 9 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- A toolbox for improving metagenome-assembled genomes.☆63Updated 3 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- A tool for removing redundant genomes from a set of assemblies☆71Updated last year
- Recombination-free trees☆58Updated last month
- Improvement of metagenome-assembled genomes☆52Updated 5 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆41Updated 4 years ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- Discover and annotate the virome☆42Updated last month
- Pipeline for metagenome and metatranscriptome joint assembly☆21Updated 2 years ago
- ☆52Updated 4 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- ☆41Updated 4 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 4 years ago
- A python library for predicting phage lifestyle based on genome sequence☆37Updated last year