Frédéric Mahé's repositories
bioinformatics-scripts
A collection of useful bioinformatics scripts
wavebird-reversing
Reverse-engineering the WaveBird protocol for the betterment of mankind
Amplicon_Recipes
Recipes for data analysis of amplicon sequencing data
Another-World-Bytecode-Interpreter
"Fabother World" an interpreter for Another World (Out of this world).
bash-emacs-editing-mode-cheat-sheet
Bash has two input modes - emacs and vi. This is emacs input/editing mode keyboard shortcut cheat sheet.
Bayexer
A Demultiplexing Tool for Illumina sequencers
biom-format
The Biological Observation Matrix (BIOM) Format Project
bioman
manual pages for the bioinformatician
CONCOCT
Clustering cONtigs with COverage and ComposiTion
cutadapt
cutadapt removes adapter sequences from sequencing reads
dropClust
Clustering of ultra-large scRNA-seq data
ESS
Git development branch
eukref
18S curation pipeline
fastqe
FASTQ sequence quality visualisation with Emoji
hiseq-16s-pipeline
Process Illumina Hi/Mi-Seq 16S amplicons on the really big computer at the University of Florida
liquidprompt
A full-featured & carefully designed adaptive prompt for Bash & Zsh
MITObim
MITObim - mitochondrial baiting and iterative mapping
pandaseq
PAired-eND Assembler for DNA sequences
qiime
Quantitative Insights Into Microbial Ecology (QIIME): Official repository for software and unit tests
swarm_breaker2
Swarm breaker companion script for swarm.
TAXAassign
Pipeline to annotate sequences at different taxonomic levels using NCBI's taxonomy
TOGGLE-DEV
Toolbox for generic NGS analyses - A framework to quickly build pipelines and to perform large-scale NGS analysis (development repository)
ym2151-decap
Silicon die analysis of the Yamaha YM2151 FM Synthesis chip