LangilleLab / microbiome_helperLinks
A repository of bioinformatic scripts, SOPs, and tutorials for analyzing microbiome data.
☆449Updated 6 months ago
Alternatives and similar repositories for microbiome_helper
Users that are interested in microbiome_helper are comparing it to the libraries listed below
Sorting:
- Code, unit tests, and tutorials for running PICRUSt2☆361Updated 3 months ago
- A complete pipeline for metagenomic analysis☆421Updated last week
- Using R language in microbiome analysis☆331Updated 2 years ago
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆430Updated last year
- Accurate sample inference from amplicon data with single nucleotide resolution☆509Updated last week
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆353Updated 3 weeks ago
- bioBakery tools for meta'omic profiling☆283Updated last month
- 🌈 Interactive analysis of metagenomics data☆421Updated 10 months ago
- Easy Amplicon data analysis pipeline☆306Updated last week
- Tutorials on phylogenetic and phylogenomic inference☆386Updated last year
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆376Updated last month
- Rapid haploid variant calling and core genome alignment☆530Updated 11 months ago
- Amplicon sequencing analysis workflow using DADA2 and QIIME2☆210Updated this week
- Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on h…☆375Updated last month
- Mass screening of contigs for antimicrobial and virulence genes☆428Updated last year
- (Not Offical) BBMap short read aligner, and other bioinformatic tools.☆235Updated 4 years ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆345Updated last year
- hybrid assembly pipeline for bacterial genomes☆602Updated 11 months ago
- Easy Metagenome Pipeline☆451Updated 5 months ago
- Rapid large-scale prokaryote pan genome analysis☆354Updated 3 years ago
- Source for the QIIME 2 Framework (Q2F).☆509Updated this week
- QIIME 2中文文档(QIIME 2 Chinese Manual)☆288Updated last year
- Genome assembly evaluation tool☆445Updated 8 months ago
- Fast genome-wide functional annotation through orthology assignment☆633Updated 3 weeks ago
- ATLAS - Three commands to start analyzing your metagenome data☆393Updated 2 months ago
- A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV☆429Updated 2 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆532Updated 2 weeks ago
- TransDecoder source☆294Updated 9 months ago
- A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…☆513Updated 4 months ago
- Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/☆515Updated last week