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Eyras’ group 

• CHEUI: Concurrent identification of m6A and m5C modifications in individual molecules from nanopore sequencing. https://github.com/comprna/CHEUI 
• RISER: Real-time in-silico enrichment of RNA species during nanopore sequencing https://github.com/comprna/riser 
• RATTLE: Reference-free reconstruction and error correction of transcriptomes from Nanopore long-read sequencing. https://github.com/comprna/RATTLE 
• SUPPA: Fast quantification of splicing and differential splicing. https://github.com/comprna/SUPPA 
• Other software tools from Eyras’ group: https://github.com/comprna 

Wen’s group 

• CRMnet: deep learning model for predicting gene expression from large regulatory sequence datasets. https://github.com/jiayuwen/CRMnet 
• scTFNet: A deep learning model for predicting transcription factor binding sites at single cell resolution. https://github.com/jiayuwen/scTFNet 
• scEISA: a R-package for scRNA-seq exon intron split analysis. 
  https://github.com/jiayuwen/scEISA 
• Identification of alternative splicing and polyadenylation in RNA-seq data. 
  https://github.com/jiayuwen/AS_APA_JoVE 
• Other software tools from Wen’s group: https://github.com/jiayuwen 

Lee’s group 

• Video-rate hologram reconstructor - Quantitative Phase Imaging. https://github.com/PurelyWhite/DHM_MATLAB_ANUAOLAB 
• Holo-Unet: Low light Denoising. https://github.com/zhiduozhang/holo-unet  

Burgio’s group 

• CUNE: Tool to the identify the most effective method for inducing a point mutation at a specified locus. https://gt-scan.csiro.au/cune/Mus_musculus  
• GT-scan: a generic pattern-matching tool designed to identify occurrences of a given motif within a given DNA sequence. https://bioinformatics.csiro.au/gt-scan/ 
• Cas12a_predictor: A CRISPR Cas12a predictor program. https://github.com/gburgio/Cas12a_predictor 

Andrew’s Group 

• StabilitySort: assessment of protein stability changes on a genome-wide scale to prioritize potentially pathogenic genetic variation https://stabilitysort.org (gitlab repo: https://gitlab.com/baaron/StabilitySort/) 

Wu’s team 

Enlighten: A platform for data discovery and collection – applicable to human and mouse datasets, and currently used for the Phenomics Translation Initiative (PTI) and the Canberra Clinical Phenomics Service (CCPS). https://db.apf.edu.au/shiny/ (only available within the ANU network).