biobakery / kneaddataLinks
Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.
☆133Updated 2 weeks ago
Alternatives and similar repositories for kneaddata
Users that are interested in kneaddata are comparing it to the libraries listed below
Sorting:
- bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…☆126Updated last month
- Accurate and rapid RiboRNA sequences Detector based on deep learning☆115Updated last year
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆87Updated 4 months ago
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆121Updated last year
- Processing pipeline for pan-genome visulization and exploration☆142Updated 2 years ago
- ☆85Updated last year
- Metatranscriptomics Tutorial☆66Updated 2 years ago
- HUMAnN is the next generation of HUMAnN 1.0 (HMP Unified Metabolic Analysis Network).☆219Updated last month
- Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics☆195Updated 2 months ago
- motus - a tool for marker gene-based OTU (mOTU) profiling☆161Updated last year
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆169Updated this week
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆36Updated 2 years ago
- Metagenomic classification of long-read sequencing data☆96Updated 2 weeks ago
- Snakemake workflow for metagenomic classification with Kraken2☆66Updated 2 years ago
- Statistical Analysis of Metagenomic Profiles☆93Updated 5 years ago
- A robust, extensible metagenomics pipeline☆174Updated this week
- a tool for inferring species tree from sequencing reads☆153Updated last month
- An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters☆91Updated last year
- ☆61Updated last year
- Pipeline for metabolic annotation of microbial genomes☆150Updated 8 months ago
- Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data☆142Updated 3 months ago
- Pan-genome wide association studies☆205Updated last year
- MaAsLin2: Microbiome Multivariate Association with Linear Models☆150Updated last year
- Bioinformatics program inStrain☆178Updated 6 months ago
- A user-friendly workflow for phylogenomics☆221Updated 3 weeks ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆262Updated last month
- Convert various sequence formats to FASTA☆139Updated 3 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated 2 years ago
- Ultra-fast preprocessing and quality control for long-read sequencing data☆195Updated 2 months ago
- Trinotate source code☆84Updated last year