selex

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A full-featured bioinformatics software collection for the comprehensive analysis of aptamers in HT-SELEX experiments.

Benchmarks collection for GRECO TFBS Benchmarking Initiative

benchmarks chip-seq pwm pbm pssm binding-sites frequency-matrix motifs pfm tfbs selex weight-matrix

Multi-step core-centric alignment approach for SELEX-seq as described in Cooper et al. (to be published)

alignment selex selex-seq

Reproducible research software for computational analysis and generative modeling of ssDNA aptamers for small-molecule targets.

RaptQA: reproducible HT-SELEX RNA aptamer design with multi-temperature RBMs, QUBO export, and annealing workflows.

End-to-end computational SELEX-NGS pipeline for RNA aptamer discovery, motif analysis, RNA structure prediction, and protein–RNA docking.

GUI application for aptamer enrichment analysis

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