mahsa-mousavi / eDNAFlow
☆20Updated 2 years ago
Alternatives and similar repositories for eDNAFlow
Users that are interested in eDNAFlow are comparing it to the libraries listed below
Sorting:
- Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies☆19Updated 2 months ago
- Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options☆13Updated this week
- An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing☆15Updated last year
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆47Updated 3 weeks ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆65Updated last year
- A web app for environmental DNA metabarcoding analysis☆10Updated 3 years ago
- creating reference databases for amplicon sequencing☆36Updated last month
- PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S rRNA, ITS and COI marker genes☆27Updated 10 months ago
- This is the command line version of MiFish pipeline. It can also be used with any other eDNA meta-barcoding primers☆20Updated last year
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆34Updated last year
- This repository contains CO1 reference sets that can be used with the RDP Classifier, BLAST, or SINTAX to classify COI metabarcode sequen…☆32Updated last year
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆33Updated 4 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆62Updated 2 years ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆53Updated 4 months ago
- ☆12Updated last year
- Assign taxonomy with blast, can be used for qiime☆22Updated last month
- Using ggtree to build phylogenetic trees☆47Updated 6 months ago
- Repo for a Microbiome Protocol☆10Updated 7 years ago
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆58Updated 8 months ago
- metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.☆15Updated 3 months ago
- functions for analyzing phyloseq data☆27Updated 3 months ago
- This is a comprehensive database for fast and accurately analyzing the phosphorus cycling genes.☆31Updated 2 years ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated this week
- ☆38Updated last year
- Speedy versions of phyloseq functions☆48Updated last year
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- Working with the outputs of sourmash in R☆27Updated last year
- A set of R scripts for the analysis of microbial profiles☆41Updated 11 months ago