biobakery / kneaddata
Quality control tool on metagenomic and metatranscriptomic sequencing data, especially data from microbiome experiments.
☆116Updated 3 weeks ago
Alternatives and similar repositories for kneaddata:
Users that are interested in kneaddata are comparing it to the libraries listed below
- Accurate and rapid RiboRNA sequences Detector based on deep learning☆106Updated last year
- bioBakery workflows is a collection of workflows and tasks for executing common microbial community analyses using standardized, validate…☆110Updated last month
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆115Updated 10 months ago
- Snakemake workflow for metagenomic classification with Kraken2☆65Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆115Updated last year
- Metatranscriptomics Tutorial☆62Updated last year
- motus - a tool for marker gene-based OTU (mOTU) profiling☆151Updated 10 months ago
- Metagenomic classification of long-read sequencing data☆77Updated this week
- Bioinformatics program inStrain☆159Updated last week
- Pan-genome wide association studies☆191Updated 9 months ago
- MaAsLin2: Microbiome Multivariate Association with Linear Models☆135Updated 4 months ago
- LongQC is a tool for the data quality control of the PacBio and ONT long reads.☆159Updated last year
- a tool for inferring species tree from sequencing reads☆146Updated last month
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆135Updated 3 months ago
- DAS Tool☆146Updated 10 months ago
- Program for estimating πN/πS, dN/dS, and other diversity measures from next-generation sequencing data☆111Updated last year
- Making whole bacterial genome sequencing data analysis easy☆103Updated 4 months ago
- Statistical Analysis of Metagenomic Profiles☆93Updated 5 years ago
- GET_HOMOLOGUES: a versatile software package for pan-genome analysis☆113Updated 2 weeks ago
- A Meta-barcoding pipeline for analysing ONT data in QIIME2 framework☆96Updated 9 months ago
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆27Updated last year
- Assessing the quality of metagenome-derived genome bins using machine learning☆199Updated this week
- ☆55Updated last year
- Match up paired end fastq files quickly and efficiently.☆145Updated 9 months ago
- Highly parallelised multi-taxonomic profiling of shotgun short- and long-read metagenomic data☆139Updated last week
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆71Updated last month
- Pipeline for metabolic annotation of microbial genomes☆143Updated this week
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆57Updated 11 months ago
- ☆178Updated last month
- Metagenome analysis pipeline☆94Updated 3 years ago