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abomsa_scripts

Scripts used in the Abomsa Paper.

adap_hitch

amblyoma_paper

script, data and figures for the amblyoma paper

amr_mada2020

collection of scripts, pipeline and data used to analyze transmission of ESBL-Ec strains in madagascar

amu_chloebatie2022

bac2ass

Create assembly from BAC short read sequences

blasr

BLASR: The PacBio® long read aligner

btvsequencing

Script and Data for BTV WGS experiment

buc_code_and_paper

Scripts, methods and draft for BUC analysis

ccs_rnaseq_analysis

Dataset and analysis of albopictus expression profiles following infection with dengue or RVF viruses

dilectus_pumillo_dufour

scripts to analyse claire dataset

dotsfiles

my dot files (bashrc, vimrc, tmux.conf, and whatnot)

formation_python

support de cours de anne muriel chifolleau

galapagos_reveal.js

presentation based on reveal.js + shiny + plot_ly

galapagosdata_and_script

Data and script used to produce the Figure 1 of the Chelonoidis Nigra 2016 paper

globeprezode

interactive_graph

intregrativehealthconcept

Datasets and analysis of integrative health bibliography

it_pgm_cmaee_pipeline

pipeline using various tools to treat ion-torrent PGM tool

manipulationr_formation

matsupp_moreau20jvir

Supplementary material for the article "The genome segments of Bluetongue virus differ in copy number in a host-specific manner" by Moreau et al

moubata_paper

scripts and data used for the moubata paper

mpileup2phylip

mysimupop

forward population genetic simulation

paceup_nanopore_wgs_amr

snakemake pipeline dedicated to analysis of WGS analysis of resistant bacteria

plotflow

A group of tools to speed up work flow associated with plotting tasks.

ppranalysis

script and data for PPR viral analysis

roumagnac2018_figs

data, script and figures for the minion/illumina comparison of viral sequencing

scripts_ms_reinforcement

seekviralreads

short pipeline designed to run on the CIRAD cluster. Allow the detection of viral sequences in fastq file.