mahsa-mousavi / eDNAFlowLinks
☆21Updated 2 years ago
Alternatives and similar repositories for eDNAFlow
Users that are interested in eDNAFlow are comparing it to the libraries listed below
Sorting:
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆47Updated this week
- 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
- Mitohelper: a mitochondrial reference sequence analysis tool for fish eDNA studies☆19Updated 4 months ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆67Updated last year
- Amplicon sequencing pipelines suitable for SSU (16S, 18S), LSU (23S, 28S) and ITS.☆54Updated last month
- creating reference databases for amplicon sequencing☆40Updated last month
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆32Updated 4 years ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated 2 weeks ago
- functions for analyzing phyloseq data☆28Updated 6 months ago
- SourceTracker2☆78Updated last year
- ☆39Updated last year
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- 16S taxonomy assignment using an ecosystem-specific database.☆17Updated 2 years ago
- PEMA: a flexible Pipeline for Environmental DNA Metabarcoding Analysis of the 16S/18S rRNA, ITS and COI marker genes☆29Updated 2 weeks ago
- An R package for removing contamination from metabarcoding (e.g., microbiome) datasets post-sequencing☆16Updated last year
- Scripts and resources for analyzing sequence data for select eco-functional genes☆20Updated 8 years ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 2 weeks ago
- This is the command line version of MiFish pipeline. It can also be used with any other eDNA meta-barcoding primers☆21Updated 2 weeks ago
- Amplicon sequencing workflow heavily using DADA2 and implemented in snakemake☆49Updated last year
- Compare different differential abundance and expression methods☆51Updated 3 years ago
- ☆76Updated last year
- Speedy versions of phyloseq functions☆48Updated 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 2 years ago
- R package for microbial pangenomics☆24Updated 3 years ago
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- Assign taxonomy with blast, can be used for qiime☆23Updated 4 months ago
- SHallow shOtGUN profiler☆54Updated 3 years ago
- Phylogenetic Organization of Metagenomic Signals (POMS)☆19Updated 2 years ago
- ALDEx tool to examine compositional high-throughput sequence data with Welch's t-test☆12Updated 6 years ago
- Make a non-redundant, comprehensive COI database from NCBI and BOLD and include customizing options☆15Updated 2 months ago