Recently published apps 05.12.2025

We have recently published GATK VariantToTable, MEME Suite Toolkit  GATK GenomicsDBImport 4.6.2.0 and  MCmicro workflow tools.

Here are the details-

GATK VariantToTable: This app transforms raw VCF data into clean, structured tables. Select the INFO, FORMAT, or genotype fields you need, and the tool generates a ready-to-use CSV/TSV file for effortless filtering, visualization, and downstream analysis in Excel, R, and Python. The enhanced release is now available on all platforms.

MEME Suite Toolkit: This is a robust set of bioinformatics tools designed to discover, analyze, and visualize DNA, RNA, and protein sequence motifs. It enables users to detect conserved patterns which regulate gene expression or protein function. Extensively used across genomics and regulatory biology, MEME Suite supports motif discovery, comparison, scanning, and enrichment analysis, making it invaluable for understanding and interpreting sequence-level regulatory signals. The toolkit is available on HI platforms.

GATK GenomicsDBImport: This is a tool designed to efficiently combine multiple gVCF files into a GenomicsDB workspace, enabling scalable joint genotyping. It organizes variant data in a tiled database format, which allows faster queries and reduces storage requirements compared to raw gVCFs. This step is typically performed before running GenotypeGVCFs in large cohort analyses. The updated version 4.6.2.0, now featuring a DB update option, is available across all platforms.

The MCmicro workflow: This is a scalable and reproducible pipeline for processing multiplexed tissue imaging data. It integrates tools for image registration, illumination correction, segmentation, and feature extraction. These tools produce high-quality single-cell spatial datasets and are designed for large-scale studies, MCmicro standardizes analysis across experiments, enabling downstream biological insights from multiplex imaging platforms. This updated workflow version, with existing models and support for custom models, is available on all platforms.