arturoarciniega Goto Github PK

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.

atria

An accurate and ultra-fast adapter and quality trimming program for Illumina Next-Generation Sequencing (NGS) data.

bash-oneliner

A collection of handy Bash One-Liners and terminal tricks for data processing and Linux system maintenance.

chip-rx-pipeline-pub

Quantitative ChIP-seq (ChIp-Rx) pipeline.

connectf_server

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.

ft-grn

Code for analysis of the Flowering Transition Gene Regulatory Network of Arabidopsis thaliana.

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

in-depth-ngs-data-analysis-course

intro-to-chipseq-flipped

labgemedep

Code Repository of the "Laboratorio Genética Molecular, Epigenética, Desarrollo y Evolución de Plantas"

minbool

Boolean expression simplifier/minimizer

peakpass

Create ChIP-Seq blacklists automaticaly and validate them.

pygna

A Python package for gene network analysis

ragtag

Tools for fast and flexible genome assembly scaffolding and improvement

smoosim

Enhancing Boolean networks with continuous logical operators and edge tuning: smoothing simulations

suff_necc

Analysis of Boolean networks using a causal logic representation

trimgalore

A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data