Stars
openASO is a project designed to identify regulatory regions of an RNA that can be targeted by antisense oligonucleotides.
Meditron is a suite of open-source medical Large Language Models (LLMs).
Alleloscope is a method for allele-specific copy number estimation that can be applied to single cell DNA and ATAC sequencing data (separately or in combination). Allele-specific estimation allows …
counTR is a method to detect differential tandem repeat content between different groups of sequencing data
Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
A single-cell analysis toolkit to jointly analyze samples from distinct conditions
Official implementation for HyenaDNA, a long-range genomic foundation model built with Hyena
An m6A-aware basecalling model to detect m6A modifications at single nucleotide resolution in individual reads (Cruciani, Delgado-Tejedor, Pryszcz et al., BioRxiv 2023)
RNA-seq prediction with deep convolutional neural networks.
Pipeline for generating reference and perturbed sequences for input into predictive models.
DeepSomatic is an analysis pipeline that uses a deep neural network to call somatic variants from tumor-normal and tumor-only sequencing data.
Analyzing and visualizing KEGG information using the grammar of graphics
Interactive multiscale visualization for structural variation in human genomes
ILIAD: A suite of automated Snakemake workflows for processing genomic data for downstream applications
Small variant, structural variant, and short tandem repeat phasing tool for PacBio HiFi reads
SHEPHERD: Few shot learning for phenotype-driven diagnosis of patients with rare genetic diseases
TxGNN: Zero-shot prediction of therapeutic use with geometric deep learning and clinician centered design
xjtu-omics / pindel
Forked from genome/pindelPindel can detect breakpoints of large deletions, medium sized insertions, inversions, tandem duplications and other structural variants at single-based resolution from next-gen sequence data. It u…
Spatially Resolved Gene Expression Prediction from H&E Histology Images via Bi-modal Contrastive Learning
molecular plots in Jupyter, powererd by Blender Geometry Nodes
PyMOL-wasm port's binary and html/javascript code