caramirezal
Data Scientist and music lover.
Health Data Science Unit, Heidelberg UniversityINF 267, 69120 Heidelberg
Pinned Repositories
dataScience
This repository contains documentation and scripts for programming, mathematical modeling, machine learning, and data science courses.
Drop-seq
Java tools for analyzing Drop-seq data
hcv_scDataIntegration
Projection of scRNA-seq data on hematopoietic cells from hepatitis C virus infected patients on scRNA-seq and scATAC-seq of immune cell profiles.
interaction_DC-pathogens
Analysis of the gene expression changes during Dendritic cell interaction with pathogens at the single cell level.
sars-cov2
Single cell data analysis of ACE2 and TMPRSS2 COVID-19 receptors expression on multiple tissues.
single-Cell_RNA-Seq_pipeline
Illumina Bio-Rad Single-Cell Sequencing workflow
singleCellDeconvolution
The aim of this project is to combine multiple single cell layers of information into a unified framework projecting a reference into a query data base and then applying a non-negative matrix factorization in order to assess the behavior of the regulatory fluxes.
SNARE_prep
dropseq-based single nuclei genomic accessibility and RNA expression (SNARE-seq) preprocessing pipeline
SQUADBookChapter
Dynamic network models has been used in biological contexts to represent complex regulatory interactions between molecules. Discrete Boolean methods are often used as a first modeling approximation. However in some biological contexts they are not sufficient to represent some behaviors as that which depends on threshold activation or molecular gradients. In these cases, ordinary differential equations are preferred but their application need the knowledge of kinetic parameters. Here we describe a continuous ODE system called Standardized Qualitative Analysis of Dynamics (SQUAD) as a first approximation to simulate continuous models without the need of kinetic parameters.
caramirezal's Repositories
caramirezal/single-Cell_RNA-Seq_pipeline
Illumina Bio-Rad Single-Cell Sequencing workflow
caramirezal/apps-script
Sample code for Google Apps Script, a cloud-based scripting service for Google Apps
caramirezal/autismProject
The aim of the project is to find gene Single Nucleotide Polymorphisms (SNP) and Copy Number Variation (CNP) association in genomic data from patient with Autism Syndrome Disorders (ASD).
caramirezal/bioreactor
This repository contains methods to process data derived from URF and DO sensors.
caramirezal/bratwurst
caramirezal/bulk-rna-seq
Implementation of a bulk RNA sequencing pipeline for NGS data.
caramirezal/dockerfile_tensor_R
caramirezal/ensambleDeSequenciasFastq
Winter genomics interview test. This repository provides scripts and routines to perform control quality, filtering and assembly of fastq Solexa sequences from Illumina platform.
caramirezal/floJoVIHDataAnalysis
Data analysis on cytometry data from samples of VIH patients.
caramirezal/gitTutorial
Git tutorial and practice.
caramirezal/gwas
Implementation of QC and data processing of genetic data for GWAS analysis.
caramirezal/hematopoiesisDataBasedModel
Exploratory analysis of data on hematopoiesis. The aim of the project is to develop a concensus model for blood cell differentiation in mouse inferred from data.
caramirezal/html-css-javascript
caramirezal/iguanafixData
Iguanafix data analysis and automation scripts
caramirezal/last_test.github.io
colab
caramirezal/machineLearningCourseraProject
Contain the 4 week project of the Machine Learning class of Data Science Coursera specialization. The test consist on applying a machine learning technique to predict body exercise patterns based on accelerometers of several comercial devices.
caramirezal/matLabNotes
MatLab scripts notes
caramirezal/MiADN
"Mi ADN México y sus colaboradores tienen los estándares más rigurosos para el análisis de todos los estudios genéticos de sus clientes. Contamos con años de experiencia en el mercado y somos líderes de la industria a nivel mundial."
caramirezal/multiview
caramirezal/network_models
Algorithms for the definition, handle, and analysis of results from regulatory network models.
caramirezal/plotFun
Compile useful plots
caramirezal/programming
Notes and shortcuts about programming languages, scripts, how to's and tutorials.
caramirezal/RegulatoryNetworkGMPModel
This github project provides all the scripts used to construct the images of the paper named "Phenotypic stability and plasticity in GMP-derived cells as determined by their underlying regulatory network". It also provides documentation.
caramirezal/reinaroja.github.io
Página tentativa para ofrecer servicios de tech
caramirezal/RepData_PeerAssessment1
Peer Assessment 1 for Reproducible Research
caramirezal/rocket
Este repositorio contiene codigos para la clase de Ciencia de Datos
caramirezal/SATSNE2019
R code for Soft Alignment of t-SNEs
caramirezal/snare_pipe
Processing scATAC-Seq data for integration to scRNA-Seq data.
caramirezal/SQUAD
The aim of the project is to implement the updated version of the Standardized Qualitative Analysis of Dynamical Systems (SQUAD) method described in Martínez-Sosa in 2013 (1), as modified from the first version in Di Cara, 2007 (2).
caramirezal/variant_calling_pipeline
Development of a simple NGS pipeline for snps variant calling starting from Illumina fastq files