microarray

analyze_geo_microarrays.py : Differential expression analysis of published microarrays datasets from the NCBI Gene Expression Omnibus (GEO)

UNet 2.0 - Pytorch implementation of the U-Net 2.0 for image semantic segmentation, with processing blocks for noisy images

Bioinformatics course project - Fall 2020, analysis of genetic expression omnibus (GEO) data series of Acute Myeloid Leukemia

Genomic data manipulation tool

Python port of R limma for differential expression analysis

bioTEA - A user friendly tool to perform transcript expression analysis

Beacon v2 - CNAG Biomedical Informatics - Tools (Data ingestion tools)

A toolkit for navigating and analyzing gene expression datasets

SparkRMA: Robust Multi-array Average (RMA) In Apache Spark

A list of publicly available Microarray Gene Expression datasets with proper attribution and associated toolkits.

extract experimental metadata from GEO xml files

Automated GEO dataset search, download, and preprocessing tool for gene expression meta-analyses

CGI server for searching and visualizing array database

Differential Expression Analysis Pipeline

Unsupervised clustering and differential expression of GABAergic interneuron markers in postmortem DLPFC: schizophrenia vs. control (GSE53987)

Tuberculosis@LOG and NPR, Macrophage gene expression time series.

Python tool to merge cross-species Illumina iScan genotype data with a reference set of genotypes from a pre-existing source.

CRISPR-Cas9 Excision Therapy Suitability

Collection of NGS analysis pipelines, transcriptomics, genomics, and bioinformatics workflows developed during my M.Sc. Biotechnology & Bioinformatics.