Frédéric Mahé's repositories
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-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
vsearch-tests
unit tests for vsearch
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-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
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)
zotero-deb
Packaged versions of Zotero and Juris-M for Debian-based systems