ctmrbio / stag-mwcLinks
StaG Metagenomic Workflow Collaboration
☆28Updated last year
Alternatives and similar repositories for stag-mwc
Users that are interested in stag-mwc are comparing it to the libraries listed below
Sorting:
- ☆83Updated 2 years ago
- A pipeline to simulate sequencing reads, such as Amplicon, Target Capture, Metagenome, and Whole genome data.☆32Updated 3 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆54Updated 2 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated 6 months 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
- SHallow shOtGUN profiler☆53Updated 3 years ago
- De novo Extraction of Strains from MetAgeNomes☆71Updated 5 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- a collection of scripts for organising bacterial genomes by species☆76Updated 3 years ago
- IS mapping software☆56Updated 3 years ago
- Add new taxa or taxonomic groups to the NCBI Taxdump files☆20Updated 5 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Updated 2 years ago
- Simple bacterial assembly and annotation pipeline☆77Updated 2 weeks ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆60Updated 6 years ago
- Estimate metagenomic coverage and sequence diversity☆54Updated last year
- Gene-flank analysis tool☆30Updated 9 months ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆45Updated 5 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆55Updated 3 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- Graph-based assembly phasing☆87Updated 4 months ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 10 months ago
- A toolkit for analyzing and visualizing phylogenetic placement data☆62Updated 7 months ago
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 4 months ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆100Updated last month
- CRyPTIC data processing pipelines☆34Updated last year
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆66Updated 3 years ago