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
- This is the command line version of MiFish pipeline. It can also be used with any other eDNA meta-barcoding primers☆20Updated 10 months ago
- Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies☆19Updated this week
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆45Updated last month
- functions for analyzing phyloseq data☆26Updated last month
- Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options☆13Updated 4 months ago
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated 2 months ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆32Updated 4 years ago
- Assign taxonomy with blast, can be used for qiime☆22Updated last year
- ☆34Updated last year
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆55Updated 6 months ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆64Updated last year
- PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S rRNA, ITS and COI marker genes☆27Updated 8 months ago
- metabaR is an R package to curate and visualise DNA metabarcoding data after basic bioinformatics analyses.☆14Updated last month
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆34Updated last year
- creating reference databases for amplicon sequencing☆34Updated this week
- A web app for environmental DNA metabarcoding analysis☆10Updated 3 years ago
- 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
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- Repo for a Microbiome Protocol☆9Updated 6 years ago
- Automatic Assembly For The Fungi☆19Updated last month
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing☆15Updated last year
- ☆49Updated 11 months ago
- Metagenomic Analysis in Real Time☆23Updated 2 weeks ago
- A set of R scripts for the analysis of microbial profiles☆41Updated 10 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated last year
- R package for microbial pangenomics☆23Updated 2 years ago
- Working with the outputs of sourmash in R☆26Updated last year
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago