biocore / songbird
Vanilla regression methods for microbiome differential abundance analysis
☆58Updated 4 years ago
Alternatives and similar repositories for songbird:
Users that are interested in songbird are comparing it to the libraries listed below
- SHallow shOtGUN profiler☆54Updated 2 years ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 3 months ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆71Updated last year
- scripts for estimating bacteria replication rates based on population genome copy number variation☆70Updated 5 years ago
- R package version of the splinectomy longitudinal statistical analysis tools☆16Updated 2 years ago
- GraftM - Rapid community profiles from metagenomes☆44Updated 7 months ago
- StaG Metagenomic Workflow Collaboration☆29Updated 5 months ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆81Updated last year
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆43Updated 4 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆52Updated 2 years ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆63Updated last year
- Convert GTDB taxonomy to NCBI taxdump format☆67Updated last year
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆57Updated 5 years ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 8 months ago
- ☆79Updated last year
- Improvement of metagenome-assembled genomes☆51Updated 4 years ago
- Reorients assembled microbial sequences☆109Updated this week
- ☆52Updated last week
- AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…☆31Updated 2 months ago
- Statistical analysis for sparse high-throughput sequencing☆69Updated 2 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated last year
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated last year
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- A toolbox for pangenome analysis and threshold evaluation.☆92Updated 2 years ago
- Bioinformatics tool to find integrons in bacterial genomes☆69Updated 8 months ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆45Updated 3 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 8 years ago
- Rapid and scalable correlation estimation for compositional data☆83Updated 9 months ago
- Sample search by metadata and features☆46Updated last year
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆27Updated last year