Tresor
Tools for simulating conventional and single-cell transcriptome sequencing readouts.
Mar 17, 2025
UMIche
A comprehensive analysis platform that uses simulated or real sequencing data to improve molecular quantification algorithms.
Mar 16, 2025
mclUMI
The Markov clustering algorithm is used to remove PCR artifacts in sequencing molecules labelled with single-UMI tags.
Mar 16, 2025
SVLearn: a dual-reference machine learning approach enables accurate cross-species genotyping of structural variants
Prelude SVlearn is a computational tool for structural variation (SV) genotyping, originally developed using machine learning methods such as Random Forest. While it demonstrated strong predictive capabilities, during the development process we also further explored whether deep learning techniques could enhance its performance. In this post, I would like to briefly present this investigation from a deep learning perspective.
Mar 11, 2025
Enhancing single-cell transcriptomics using interposed anchor oligonucleotide sequences
Video An anchor-interposed bead is designed to enhance single-cell long-read transcriptomics by simply placing an anchor sequence between cell barcode and a UMI. This anchor provides a clear demarcation point, enhancing UMI recognition and minimising synthesis errors.
Jan 1, 2025
ResimPy
ResimPy provides a scalable interface for users via Python to simulate massive reads of varying sequencing technologies, in order to avoid the time-consuming nature of experimental trials. Simulated reads can have the UMI- barcode- primer-, or spacer-featured composition.
Feb 5, 2024
Correcting PCR amplification errors in unique molecular identifiers to generate accurate numbers of sequencing molecules
intro coming soon…
Jan 1, 2024