Pinned Repositories
Acastellanii_genome_analysis
Comparative analysis of the genomes from two Acanthamoeba castellanii strains
Acastellanii_genome_annotation
Reproducible container-based pipeline for the annotation of the Acanthamoeba castellanii genome
clop
dnaglider
Sliding window genome statistics on FASTA files
hicreppy
Python reimplementation of hicrep with compatibility for sparse matrices
tinycov
Command line tool to plot genomic coverage from a BAM file
chromosight
Computer vision based program for pattern recognition in chromosome (Hi-C) contact maps
gimie
Extract linked metadata from repositories
rdfpipe-rs
Quickly convert between RDF file formats. A rust implementation of rdfpipe based on the sophia crate.
tripsu
Pseudonymize rdf graphs for privacy protection.
cmdoret's Repositories
cmdoret/hicreppy
Python reimplementation of hicrep with compatibility for sparse matrices
cmdoret/tinycov
Command line tool to plot genomic coverage from a BAM file
cmdoret/clop
cmdoret/Acastellanii_genome_analysis
Comparative analysis of the genomes from two Acanthamoeba castellanii strains
cmdoret/Acastellanii_genome_annotation
Reproducible container-based pipeline for the annotation of the Acanthamoeba castellanii genome
cmdoret/Acastellanii_legionella_infection
Analysis of genomic changes induced in Acanthamoeba castellanii C3 following infection by Legionella pneumophila
cmdoret/dnaglider
Sliding window genome statistics on FASTA files
cmdoret/HiC_scrambler
Introducing structural variations in Hi-C contact maps to try detecting and reversing them.
cmdoret/Acastellanii_hybrid_assembly
Hybrid genome assembly of Acanthamoeba castellanii. Combining long reads, Hi-C and shotgun.
cmdoret/cmdoret.github.io
My personal website
cmdoret/mtg_ontology
An ontology describing cards in Magic The Gathering.
cmdoret/rdf-network-viz
Prefect workflow to visualize networks from RDF data
cmdoret/sequence_loopability
Investigating sequence features underlying chromatin loops
cmdoret/yt2logseq
Experiment to generate logseq notes from a youtube video using ML.
cmdoret/calamus
A JSON-LD Serialization Libary for Python
cmdoret/causalimpact
Python port of CausalImpact R library
cmdoret/cmdoret
cmdoret/digiplant
cmdoret/dotfiles
collection of configuration files
cmdoret/genome_assembly_tools
List of genome assembly tools
cmdoret/HiC_reassembler
cmdoret/HiCExperiment
cmdoret/htslurp
slurp noodles-htsget streams into python
cmdoret/jigsaw-toxic-comment-classification-challenge-2018
Improving best solutions from an old competition for educational purpose
cmdoret/maturin-nix-example
cmdoret/phd
My PhD thesis and associated manuscripts
cmdoret/renku
The Renku Project provides a platform and tools for reproducible and collaborative data analysis.
cmdoret/renku-project-template
A repository for default Renku project templates.
cmdoret/renku-python
A Python library for the Renku collaborative data science platform.
cmdoret/vim-motions-in-a-nutshell
What you really need to know about Vim motions when starting to learn them.