cguccione / human_host_filtration
Pipeline which removes human DNA from microbial shotgun samples.
☆11Updated last month
Related projects ⓘ
Alternatives and complementary repositories for human_host_filtration
- Snakemake workflow for comparison of differential abundance ranks☆13Updated 8 months ago
- ☆18Updated 3 months ago
- MaAsLin3: Microbiome Multivariate Association with Linear Models☆14Updated last week
- Scalable creating/updating of metagenome profiling databases☆58Updated last year
- Accurate metagenomi/metatranscriptomic analysis pipeline☆22Updated 3 years ago
- A microbiome analysis toolkit for R☆21Updated last year
- Metagenomic Intra-Species Diversity Analysis (MIDAS)☆36Updated 2 months ago
- A metagenomic strategy for harnessing the chemical repertoire of the human microbiome☆32Updated last year
- A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.☆16Updated 3 weeks ago
- Bayesian Inferential Regression for Differential Microbiome Analysis☆22Updated 11 months ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆25Updated last week
- MetaSNV, a metagenomic SNV calling pipeline.☆20Updated 2 years ago
- ☆43Updated last year
- Plot microbiome time series in parallel☆24Updated last year
- ☆15Updated 3 weeks ago
- Dadaist2 🟨 Highway to R☆13Updated 9 months ago
- Pipeline for metagenome and metatranscriptome joint assembly☆18Updated last year
- A containerized bioinformatics pipeline for viral metagenomic data analysis☆25Updated 3 months ago
- MinPath (Minimal set of Pathways) is a parsimony approach for biological pathway reconstructions using protein family predictions, achiev…☆19Updated 3 years ago
- Bacterial GWAS analysis☆32Updated last month
- ☆45Updated 7 months ago
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆25Updated 3 weeks ago
- Working with the outputs of sourmash in R☆25Updated last year
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆18Updated 8 months ago
- TAXnomic Profile Aggregation and STAndardisation☆34Updated 3 weeks ago
- Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.☆20Updated 3 weeks ago
- Sparse Cooccurence Network Investigation for Compositional data☆23Updated 3 weeks ago
- ☆25Updated 2 months ago
- MAG Circularization Method☆33Updated 2 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆43Updated last year