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A versatile tool to perform pile-up analysis on Hi-C data in .cool format.
Biological foundation modeling from molecular to genome scale
🧬 gget enables efficient querying of genomic reference databases
An open source python library for automated feature engineering
FinaleToolkit is a package and standalone program to extract fragmentation features of cell-free DNA from paired-end sequencing data.
[ICLR 2024] DNABERT-2: Efficient Foundation Model and Benchmark for Multi-Species Genome
Helper scripts for biological data processing from Sentieon
gReLU is a python library to train, interpret, and apply deep learning models to DNA sequences.
pandas on AWS - Easy integration with Athena, Glue, Redshift, Timestream, Neptune, OpenSearch, QuickSight, Chime, CloudWatchLogs, DynamoDB, EMR, SecretManager, PostgreSQL, MySQL, SQLServer and S3 (…
A novel genome assembly pipeline based on deep learning
LoFreq Star: Sensitive variant calling from sequencing data
Make awesome display tables using Python.
A modern, high customizable, responsive Jekyll theme for documentation with built-in search.
Burn is a new comprehensive dynamic Deep Learning Framework built using Rust with extreme flexibility, compute efficiency and portability as its primary goals.
Lecture Notes for Linear Algebra Featuring Python. This series of lecture notes will walk you through all the must-know concepts that set the foundation of data science or advanced quantitative ski…
A Collection of Variational Autoencoders (VAE) in PyTorch.
Tool for plotting sequencing data along genomic coordinates.
Stratification BED files from the Global Alliance for Genomics and Health (GA4GH) Benchmarking Team and the Genome in a Bottle Consortium. These files can be used as standard resource of BED files …
Dermatology ddx dataset, Jax implementations of Monte Carlo conformal prediction, plausibility regions and statistical annotation aggregation from our recent work on uncertain ground truth (TMLR'23…
Ultima scripts related to downstream processing of WGS, MRD, methylation analysis
Various algorithms for analysing genomics data