Stars
Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
Modelling human health trajectories using generative transformers
Official code repository for GATK versions 4 and up
Open-source implementation of AlphaEvolve
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
A playbook for systematically maximizing the performance of deep learning models.
Pytorch implementation of set transformer
This API provides programmatic access to the AlphaGenome model developed by Google DeepMind.
a framework for training sequence-level deep learning networks
code to run sei and obtain sei and sequence class predictions
Saluki, a method to predict mRNA half-lives from sequence
Various algorithms for analysing genomics data
Predictive Biomarker Modeling Framework (PBMF)
A Hyperparameter Tuning Library for Keras
A small library for automatical adjustment of text position in matplotlib plots to minimize overlaps.
Pangolin is a deep-learning method for predicting splice site strengths.
Specifications of SAM/BAM and related high-throughput sequencing file formats
Cell type specific enhancer-gene predictions using ABC model (Fulco, Nasser et al, Nature Genetics 2019)
add statistical annotations (pvalue significance) on an existing boxplot generated by seaborn boxplot
A simple and efficient tool to parallelize Pandas operations on all available CPUs
CADD scripts release for offline scoring. For more information about CADD, please visit our website
add statistical significance annotations on seaborn plots. Further development of statannot, with bugfixes, new features, and a different API.
dN/dS methods to quantify selection in cancer and somatic evolution
gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
Machine learning methods for DNA sequence analysis.