frederic-mahe

Hardware-Target-Game-Database

Flash-cart optimized file and folder layouts.

Analogue-Pocket

An issue tracker for Analogue's Pocket, a handheld FPGA device released in December 2021

swarm

A robust and fast clustering method for amplicon-based studies

stampa

Sequence Taxonomic Assignment by Massive Pairwise Alignments

mumu

C++ implementation of lulu, a R package for post-clustering curation of metabarcoding data

swarm-tests

Datasets and scripts to test the amplicon clustering method swarm

BIO9905MERG1_lulu_seminar

post-clustering curation of metabarcoding data with lulu

fred-metabarcoding-pipeline

Fred's metabarcoding pipeline: from raw fastq files to an occurrence table at light-speed

FROGS

FROGS is a galaxy/CLI workflow designed to produce an OTUs count matrix from high depth sequencing amplicon data.

vsearch-tests

unit tests for vsearch

AmpStop

BIO9905MERG1_vsearch_swarm_pipeline

A vsearch, cutadapt and swarm-based pipeline for metabarcoding data

Boye-Kinzig-Stream-Parasites

18S V9 Metabarcoding data for rivers Boye and Kinzig, Germany

canu

A single molecule sequence assembler for genomes large and small.

dna-sequence-folder

given a 'duplex' DNA sequence, find a potential folding point

eukbank-metabarcoding-pipeline

bioinformatics pipeline used to create EukBank v1.0

fred-metabarcoding-pipeline-nextflow

Fred's metabarcoding pipeline with Nextflow

genesis

A library for working with phylogenetic data.

jtcores

FPGA cores compatible with multiple arcade game machines

kmdiff

Differential k-mer analysis

metabaRpipe

an R package to analyse metabarcoding data using dada2 and phyloseq

neotropical-soils-submission

prepare and format metadata for a EBI/ENA submission of the Neotropical metabarcoding data

oracle

Oracle-Burkina-Faso-Soil-Metagenomics

Project Oracle: metagenomics of agricultural soils from Burkina Faso

parallel-meta

A High Performance Microbiome Analysis Toolkit.

pr2-primers-shiny

Shiny application for pr2-primers database

rappas2

swipe

Smith-Waterman database searches with inter-sequence SIMD parallelisation

TideHunter

TideHunter: efficient and sensitive tandem repeat detection from noisy long reads using seed-and-chain

tidyverse-fanclub-Montpellier-2019

support de la formation manipulation de données et figures sous R (Cirad, Montpellier, 6 juin 2019)