jtamames / SqueezeMeta
A complete pipeline for metagenomic analysis
☆392Updated this week
Alternatives and similar repositories for SqueezeMeta:
Users that are interested in SqueezeMeta are comparing it to the libraries listed below
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆412Updated last year
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆478Updated this week
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆360Updated 5 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆301Updated 6 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆326Updated last year
- NCBI Prokaryotic Genome Annotation Pipeline☆326Updated 2 weeks ago
- ATLAS - Three commands to start analyzing your metagenome data☆381Updated last month
- Fast genome-wide functional annotation through orthology assignment☆588Updated 9 months ago
- Tools for fast and flexible genome assembly scaffolding and improvement☆489Updated last year
- Rapid large-scale prokaryote pan genome analysis☆332Updated 2 years ago
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆218Updated 4 years ago
- 🌈 Interactive analysis of metagenomics data☆409Updated 4 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆314Updated 8 months ago
- Code, unit tests, and tutorials for running PICRUSt2☆335Updated 2 weeks ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆323Updated last week
- Gene cluster comparison figure generator☆553Updated 2 months ago
- Eukaryotic Genome Annotation Pipeline☆332Updated 3 weeks ago
- BRAKER is a pipeline for fully automated prediction of protein coding gene structures with GeneMark-ES/ET/EP/ETP and AUGUSTUS in novel eu…☆377Updated 3 weeks ago
- Sequence correction provided by ONT Research☆436Updated 4 months ago
- bioBakery tools for meta'omic profiling☆269Updated 3 months ago
- Mass screening of contigs for antimicrobial and virulence genes☆388Updated last year
- Plotting scripts for long read sequencing data☆458Updated 2 weeks ago
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆349Updated this week
- Rapid comparison and dereplication of genomes☆275Updated last month
- hybrid assembly pipeline for bacterial genomes☆581Updated 6 months ago
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆304Updated last year
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆191Updated 2 weeks ago
- Assembly and binning of metagenomes☆228Updated this week
- TransDecoder source☆284Updated 4 months ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆237Updated 2 months ago