ArturoArciniega
Biologist interested in evolutionary developmental biology, systems biology and bioinformatics.
Instituto de Ecología, UNAMMéxico
Pinned Repositories
ANANSE
Prediction of key transcription factors in cell fate determination using enhancer networks. See full ANANSE documentation for detailed installation instructions and usage examples. http://anansepy.readthedocs.io
aradeepopsis
A versatile, fully open-source pipeline to extract phenotypic measurements from plant images
ArturoArciniega
Config files for my GitHub profile.
Bash-Oneliner
A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.
fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
fastq_utils
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
GENIE3_sysgen
Extension of the GENIE3 method for the inference of gene regulatory networks from systems genetics data.
homebrew-bio
:beer::microscope: Bioinformatics formulae for the Homebrew package manager (macOS and Linux)
IDEAMEX
Integrative Differential Expression Analysis for Multiple EXperiments
imagej_macros_and_scripts
ImageJ macros and scripts written at the imaging facility MRI
ArturoArciniega's Repositories
ArturoArciniega/fastp
An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
ArturoArciniega/ANANSE
Prediction of key transcription factors in cell fate determination using enhancer networks. See full ANANSE documentation for detailed installation instructions and usage examples. http://anansepy.readthedocs.io
ArturoArciniega/aradeepopsis
A versatile, fully open-source pipeline to extract phenotypic measurements from plant images
ArturoArciniega/ArturoArciniega
Config files for my GitHub profile.
ArturoArciniega/Bash-Oneliner
A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.
ArturoArciniega/fastq_utils
Validation and manipulation of FASTQ files, scRNA-seq barcode pre-processing and UMI quantification.
ArturoArciniega/GENIE3_sysgen
Extension of the GENIE3 method for the inference of gene regulatory networks from systems genetics data.
ArturoArciniega/homebrew-bio
:beer::microscope: Bioinformatics formulae for the Homebrew package manager (macOS and Linux)
ArturoArciniega/IDEAMEX
Integrative Differential Expression Analysis for Multiple EXperiments
ArturoArciniega/imagej_macros_and_scripts
ImageJ macros and scripts written at the imaging facility MRI
ArturoArciniega/TrimGalore
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
ArturoArciniega/Atria
An accurate and ultra-fast adapter and quality trimming program for Illumina Next-Generation Sequencing (NGS) data.
ArturoArciniega/boolean-network-sketches
A small library for logical model inference using Boolean network sketches.
ArturoArciniega/BREIN
ArturoArciniega/ChIP-Rx-Pipeline-Pub
Quantitative ChIP-seq (ChIp-Rx) pipeline.
ArturoArciniega/connectf_server
ArturoArciniega/FT-GRN
Code for analysis of the Flowering Transition Gene Regulatory Network of Arabidopsis thaliana.
ArturoArciniega/In-depth-NGS-Data-Analysis-Course
ArturoArciniega/Intro-to-ChIPseq-flipped
ArturoArciniega/LabGeMEDEP
Code Repository of the "Laboratorio Genética Molecular, Epigenética, Desarrollo y Evolución de Plantas"
ArturoArciniega/minbool
Boolean expression simplifier/minimizer
ArturoArciniega/peakPass
Create ChIP-Seq blacklists automaticaly and validate them.
ArturoArciniega/pygna
A Python package for gene network analysis
ArturoArciniega/RagTag
Tools for fast and flexible genome assembly scaffolding and improvement
ArturoArciniega/red_ras_kks
ArturoArciniega/smoosim
Enhancing Boolean networks with continuous logical operators and edge tuning: smoothing simulations
ArturoArciniega/suff_necc
Analysis of Boolean networks using a causal logic representation