ryanmelnyk / PyParanoid
Rapid and scalable homolog identification for bacterial genomes
☆33Updated 5 years ago
Alternatives and similar repositories for PyParanoid:
Users that are interested in PyParanoid are comparing it to the libraries listed below
- Split Kmer Analysis☆63Updated 2 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- reference-based long read assemblies of bacterial genomes☆47Updated 3 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆43Updated 4 years ago
- Recombination-free trees☆56Updated last year
- Estimate metagenomic coverage and sequence diversity☆47Updated 5 months ago
- ☆52Updated 3 years ago
- Visualize whole genome alignments as linear maps☆70Updated 4 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- IS mapping software☆53Updated 3 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆47Updated 2 years ago
- Add new taxa or taxonomic groups to the NCBI Taxdump files☆19Updated 4 years ago
- A tool for removing redundant genomes from a set of assemblies☆70Updated last year
- De novo Extraction of Strains from MetAgeNomes☆69Updated 4 years ago
- ☆36Updated 2 years ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 2 years ago
- A toolkit for prokaryotic comparative genomics☆40Updated last week
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 3 years ago
- ☆79Updated last year
- Gene-flank analysis tool☆26Updated last month
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- GraftM - Rapid community profiles from metagenomes☆44Updated 6 months ago
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆37Updated last year
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆41Updated last month