bhattlab / kraken2_classificationLinks
Snakemake workflow for metagenomic classification with Kraken2
☆65Updated 2 years ago
Alternatives and similar repositories for kraken2_classification
Users that are interested in kraken2_classification are comparing it to the libraries listed below
Sorting:
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆58Updated last year
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- nanodisco: a toolbox for discovering and exploiting multiple types of DNA methylation from individual bacteria and microbiomes using nano…☆70Updated 3 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆55Updated 3 years ago
- Bioinformatics Tools☆90Updated last week
- Making whole bacterial genome sequencing data analysis easy☆112Updated 5 months ago
- Development version of Easyfig☆100Updated last year
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆83Updated 3 months ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆29Updated 5 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated 2 years ago
- ☆83Updated 2 years ago
- Scripts and libraries for Environmental Genomics☆38Updated 7 months ago
- Simple bacterial assembly and annotation pipeline☆78Updated 3 weeks ago
- HoCoRT - Remove specific organisms from sequencing reads☆17Updated 9 months ago
- Metagenomics-related extended functionalities to samtools☆21Updated 2 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆123Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆55Updated 5 months ago
- Long-read metagenomic analysis☆105Updated 2 years ago
- Microbiome classification pipeline☆65Updated 4 months ago
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆77Updated 2 years ago
- A general metagenomics data mining system focus on robust microbiome research☆58Updated last year
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆62Updated 4 years ago
- A toolbox for comparative genomics.☆104Updated 4 years ago
- ☆63Updated 2 months ago
- FlexTaxD (Flexible Taxonomy Databases) - Create, add, merge different taxonomy sources (QIIME, GTDB, NCBI and more) and create metagenomi…☆67Updated 6 months ago
- Horizontal gene transfer (HGT) identification pipeline☆63Updated 2 years ago
- Rapid and scalable correlation estimation for compositional data☆93Updated last year
- ☆32Updated 2 years ago
- Convert GTDB taxonomy to NCBI taxdump format☆73Updated 2 years ago
- Course material for the metagenomics course☆44Updated 3 years ago