Zymo-Research / figaroLinks
An efficient and objective tool for optimizing microbiome rRNA gene trimming parameters
☆90Updated last year
Alternatives and similar repositories for figaro
Users that are interested in figaro are comparing it to the libraries listed below
Sorting:
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆56Updated 3 years ago
- Simple statistical identification and removal of contaminants in marker-gene and metagenomics sequencing data☆161Updated 2 years ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆68Updated last year
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆77Updated 2 years ago
- Metatranscriptomics Tutorial☆63Updated 2 years ago
- Massively parallel phylogenetic placement of genetic sequences☆84Updated 2 years ago
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆81Updated last month
- Making whole bacterial genome sequencing data analysis easy☆109Updated 4 months ago
- Rapid and scalable correlation estimation for compositional data☆92Updated last year
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆47Updated 4 years ago
- treeWAS: A Phylogenetic Tree-Based Tool for Genome-Wide Association Studies in Microbes☆104Updated 6 months ago
- Snakemake workflow for metagenomic classification with Kraken2☆66Updated 2 years ago
- Protist Ribosomal Reference database (PR2) - SSU rRNA gene database☆82Updated 2 months ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 2 years ago
- ☆76Updated last year
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- ☆57Updated 3 weeks ago
- Using ggtree to build phylogenetic trees☆48Updated 9 months ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆55Updated last year
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆81Updated 9 years ago
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆124Updated last year
- 🍄 Qiime2 ITS classifiers for the UNITE database☆44Updated 2 weeks ago
- Current Challenges and Best Practice Protocols for Microbiome Analysis using Amplicon and Metagenomic Sequencing☆121Updated last year
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆87Updated last year
- A toolbox for comparative genomics.☆104Updated 4 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated last year
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆145Updated 3 months ago
- ☆85Updated last year
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆34Updated 2 years ago
- ☆84Updated last year