knights-lab / SHOGUNLinks
SHallow shOtGUN profiler
☆53Updated 3 years ago
Alternatives and similar repositories for SHOGUN
Users that are interested in SHOGUN are comparing it to the libraries listed below
Sorting:
- Statistical analysis for sparse high-throughput sequencing☆71Updated last year
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 3 years ago
- Compare different differential abundance and expression methods☆52Updated 3 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆57Updated 3 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆67Updated last year
- ☆23Updated 7 years ago
- An ultrafast optimal aligner for mapping large NGS data to large genome databases.☆57Updated last year
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆48Updated 5 years ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆61Updated 2 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Updated 5 years ago
- Protein Alignment and Detection Interface☆60Updated last year
- Sparse Cooccurence Network Investigation for Compositional data☆25Updated last week
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆65Updated 6 years ago
- Phylogenetic and taxonomic analysis for genomes and metagenomes☆82Updated 9 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆55Updated 7 months ago
- Snakemake workflow for metagenomic classification with Kraken2☆67Updated 2 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆61Updated last year
- scripts for estimating bacteria replication rates based on population genome copy number variation☆73Updated 6 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆34Updated 5 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆51Updated 4 years ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆32Updated 9 months ago
- GraftM - Rapid community profiles from metagenomes☆48Updated 3 months ago
- ☆78Updated 2 years ago
- gutSMASH☆57Updated 4 months ago
- ☆42Updated 4 years ago
- Simple bacterial assembly and annotation pipeline☆81Updated last week
- Calculates the lowest common ancestors of each query sequence in a Blast result☆32Updated 8 years ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆73Updated 3 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- A public resource for microbiome bioinformatics benchmarking using artificially constructed (i.e., mock) communities.☆83Updated 6 years ago