Pinned Repositories
ansible-playbook-scicore-courses-cloud
Ansible playbooks to boot resources in the cloud for the sciCORE courses
ccpca
ccPCA: contrasting clusters in PCA.
ConcentricTree
generation of a "beautiful" tree of life
corona_benford
coverage_viewer
interactive vizualization of overlayed coverage tracks
csv-to-openSpace
helper code to go from data in a csv format to a .speck and .asset files importable in openSpace
DeCoSTAR
repository for all DeCoSTAR standalone code
pyKleeBarcode
Implements methods and scripts to compute a structure matrix from a multiple sequence alignment. Th
pyKleeBarcode-publication-supporting-code-and-data
contains the code and data to accompany the publication of the pyKleeBarcode software (https://github.com/WandrilleD/pyKleeBarcode)
recPhyloXML
PhyloXML inspired format to represent reconciliations
WandrilleD's Repositories
WandrilleD/recPhyloXML
PhyloXML inspired format to represent reconciliations
WandrilleD/DeCoSTAR
repository for all DeCoSTAR standalone code
WandrilleD/pyKleeBarcode
Implements methods and scripts to compute a structure matrix from a multiple sequence alignment. Th
WandrilleD/pyKleeBarcode-publication-supporting-code-and-data
contains the code and data to accompany the publication of the pyKleeBarcode software (https://github.com/WandrilleD/pyKleeBarcode)
WandrilleD/ansible-playbook-scicore-courses-cloud
Ansible playbooks to boot resources in the cloud for the sciCORE courses
WandrilleD/ccpca
ccPCA: contrasting clusters in PCA.
WandrilleD/ConcentricTree
generation of a "beautiful" tree of life
WandrilleD/corona_benford
WandrilleD/coverage_viewer
interactive vizualization of overlayed coverage tracks
WandrilleD/csv-to-openSpace
helper code to go from data in a csv format to a .speck and .asset files importable in openSpace
WandrilleD/elasticluster
A staging area for my (larger) contributions to ElastiCluster. See http://github.com/gc3-uzh-ch/elasticluster for the real thing
WandrilleD/encyclopedia-of-life-info-scraper
helper scripts to grab data (images, mainly) about specific species from the Encyclopedia Of Life (https://eol.org/)
WandrilleD/FwdTreeSim
Python module for simulation of forward evolution of a prokaryotic(-like) pangenome
WandrilleD/GenomeTRACE
Code pertaining to the computation and optimization of a global score (TRACE) defined on a group of gene families associated with a species tree and with adjacencies between extant genes
WandrilleD/integrate_tree_to_XYZ
Scripts to project a tree structure in 3D from a set of coordinates of their leaves (by default 2D coordinates).
WandrilleD/junk
tmp to play
WandrilleD/jupyterlite_demo
WandrilleD/mp4-video-chopper
a few python notebook to help editing mp4 video - mostly a wrapper around ffmpeg
WandrilleD/ncov-ingest
A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV rebuilds.
WandrilleD/RecoderLaRoue
recoder des algorithmes connus en phylogénie (et autres), dans un objectif pédagogique
WandrilleD/RNAseq-introduction-training
"Introduction to bulk RNA-Seq" course, largely inspired by the SIB course on the same topic
WandrilleD/scDEED_python
a python implementation of the R scDEED package (https://github.com/JSB-UCLA/scDEED)
WandrilleD/severe-neuro-COVID-cross-sectional-study-etteretal2022
Computational documents of "Severe Neuro-COVID is associated with peripheral immune signatures, autoimmunity and neurodegeneration: a prospective cross-sectional study" by Etter et al. 2022
WandrilleD/tama
Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
WandrilleD/training-collection
Collection of bioinformatics training materials