Jose V. Die

Molecular biology visualization tools for Shiny apps

OmicSelector - Environment, docker-based application and R package for biomarker signiture selection (feature selection) & deep learning diagnostic tool development from high-throughput high-throughput omics experiments and other multidimensional datasets. Initially developed for miRNA-seq, RNA-seq and qPCR.

Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.

An R-package for daily tasks required to handle biological data as well as avoid re-coding of small functions for quick but necessary data management.

RDML data import for R

Repository for pan-spefic primers designed for tiled full genome sequencing or qPCR of viral pathogens. Pathogens include amongst others Hepatitis E virus, Hepatitis A virus, Poliovirus and SARS-COV-2. Primers were designed with varVAMP.

Takes excel file output from qPCR (Quantstudio3, ABI) and sample labels. Optionally analyzes standard curves and plots CT, Tms and absolute copies

Quality assessing, analyzing and testing the statistical significance of real-time quantitative PCR data

rtpcr: a package for statistical analysis and graphical display of real-time PCR data in R

quantitative PCR analysis in the tidyverse

Real-Time PCR Data Sets by Karlen et al. (2007)

Real-Time PCR Data Sets by Sisti et al. (2010)

The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.

Real-Time PCR Data Sets by Boggy et al. (2010)

Technical data sets by Ruijter et al. (2013)

Real-Time PCR Data Sets by Batsch et al. (2008)

Biomarker data set by Vermeulen et al. (2009)

Scripts for "Wheat NAC transcription factor NAC5-1 is a positive regulator of senescence" including DAP-seq analysis

Modeling of primers/probes hybridization on to a set of target viral sequences.