LangilleLab / microbiome_helper
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
☆440Updated 2 months ago
Alternatives and similar repositories for microbiome_helper:
Users that are interested in microbiome_helper are comparing it to the libraries listed below
- Code, unit tests, and tutorials for running PICRUSt2☆337Updated 3 weeks ago
- A complete pipeline for metagenomic analysis☆393Updated last week
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆413Updated last year
- bioBakery tools for meta'omic profiling☆269Updated 4 months ago
- Easy Amplicon data analysis pipeline☆275Updated 3 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆326Updated last year
- Accurate sample inference from amplicon data with single nucleotide resolution☆485Updated 2 weeks ago
- hybrid assembly pipeline for bacterial genomes☆582Updated 6 months ago
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆323Updated 2 weeks ago
- Tutorials on phylogenetic and phylogenomic inference☆370Updated last year
- microbiome R package☆290Updated 2 months ago
- 🌈 Interactive analysis of metagenomics data☆409Updated 5 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆478Updated this week
- Using R language in microbiome analysis☆299Updated last year
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆191Updated this week
- Convert SNPs in VCF format to PHYLIP, NEXUS, binary NEXUS, or FASTA alignments for phylogenetic analysis☆305Updated last year
- Rapid haploid variant calling and core genome alignment☆493Updated 7 months ago
- Rapid large-scale prokaryote pan genome analysis☆332Updated 2 years ago
- Phylogenetic orthology inference for comparative genomics☆738Updated 3 months ago
- Easy Metagenome Pipeline☆374Updated this week
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆487Updated 3 weeks ago
- QIIME 2中文文档(QIIME 2 Chinese Manual)☆275Updated last year
- Rapid prokaryotic genome annotation☆864Updated 10 months ago
- Official repository for the QIIME 2 framework.☆493Updated 2 weeks ago
- A grammar of graphics for comparative genomics☆648Updated 3 weeks ago
- Interpretation and visualization of microbiome charts☆401Updated last month
- Mass screening of contigs for antimicrobial and virulence genes☆388Updated last year
- Fast genome-wide functional annotation through orthology assignment☆588Updated 9 months ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆360Updated 5 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆314Updated 8 months ago