ryanmelnyk / PyParanoidLinks
Rapid and scalable homolog identification for bacterial genomes
☆33Updated 6 years ago
Alternatives and similar repositories for PyParanoid
Users that are interested in PyParanoid are comparing it to the libraries listed below
Sorting:
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- Split Kmer Analysis☆65Updated 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
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- Visualize whole genome alignments as linear maps☆73Updated last month
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Gene-flank analysis tool☆30Updated 9 months ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆53Updated 2 months ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆76Updated 9 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- reference-based long read assemblies of bacterial genomes☆50Updated 4 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Recombination-free trees☆60Updated 3 weeks ago
- Toolkit for preparing genomes for submission to NCBI☆29Updated 4 years ago
- Inferring bacterial recombination rates from large-scale sequencing datasets.☆42Updated 2 years ago
- In-depth characterization and annotation of differences between two sets of DNA sequences☆62Updated 5 years ago
- De novo Extraction of Strains from MetAgeNomes☆70Updated 5 years ago
- ☆53Updated 4 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Scalable creating/updating of metagenome profiling databases☆62Updated 2 months ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆44Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- A toolkit for prokaryotic comparative genomics☆50Updated 7 months ago
- Bifrost graph gene caller.☆95Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆42Updated 5 years ago
- A resistome profiler for Graphing Resistance Out Of meTagenomes☆66Updated 5 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆68Updated 3 years ago
- Assembling the cause of phenotypes and genotypes from NGS data☆29Updated 5 years ago
- ☆83Updated 2 years ago