terrimporter / MetaWorks
MetaWorks is a flexible multi-marker metabarcode pipeline for processing paired-end Illumina reads from raw fastq.gz files to taxonomic assignments.
☆17Updated last year
Related projects: ⓘ
- This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequen…☆30Updated last year
- ☆19Updated last year
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated 10 months ago
- Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options☆13Updated 4 months ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆30Updated last month
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆32Updated last year
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆42Updated last week
- Rank-based Gene Ontology analysis of gene expression data☆38Updated last year
- Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies☆17Updated last week
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆46Updated last year
- Phylogenetic Organization of Metagenomic Signals (POMS)☆19Updated last year
- ☆35Updated 6 years ago
- Metagenomic Analysis in Real Time☆17Updated last month
- functions for analyzing phyloseq data☆26Updated last month
- Automatic Assembly For The Fungi☆19Updated last year
- Tools for extracting individual genomes from metagenomes☆17Updated 9 months ago
- eDNA metabarcoding pipeline☆30Updated last week
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆51Updated 2 weeks ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆29Updated 3 years ago
- BEAV: Bacterial Element Annotation reVamped☆55Updated 2 weeks ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆52Updated 3 weeks ago
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆19Updated 3 years ago
- An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing☆12Updated 11 months ago
- Whole-genome bioinformatic pipeline for pooled or individual-based NGS data using bash and R☆18Updated 2 years ago
- Speedy versions of phyloseq functions☆45Updated 5 months ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆28Updated 6 years ago
- These are scripts that I use frequently in genome annotation projects. Some of them have evolved awkwardly so the code is difficult to fo…☆15Updated 6 years ago
- Working with the outputs of sourmash in R☆22Updated 10 months ago
- microhaplotype visualizer and analyzer☆18Updated 3 years ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆21Updated 2 years ago