de-Boer-Lab / hashFragLinks
A command-line tool to mitigate homology-based data leakage in sequence-to-expression models
☆16Updated 3 months ago
Alternatives and similar repositories for hashFrag
Users that are interested in hashFrag are comparing it to the libraries listed below
Sorting:
- Dataloader for applying sequence models to personalized genomics☆27Updated last week
- Annotated sequence data☆11Updated 8 months ago
- A fast dataloader for bigwig files made for machine learning☆28Updated 5 months ago
- Elucidating the Utility of Genomic Elements with Neural Nets☆70Updated 10 months ago
- Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …☆35Updated 6 months ago
- Genomic sequence preprocessing toolkit☆12Updated last week
- Multi-Omics Peptide Generator☆27Updated 3 weeks ago
- A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.☆84Updated 2 weeks ago
- Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.☆75Updated 3 weeks ago
- This repository hosts a minimal version of a Python API for BPNet.☆49Updated last month
- Code from "Deep Learning Of The Regulatory Grammar Of Yeast 5′ Untranslated Regions From 500,000 Random Sequences"☆15Updated 8 years ago
- https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2☆30Updated 8 months ago
- Machine learning methods for DNA sequence analysis.☆55Updated last month
- ☆18Updated last year
- ☆32Updated 8 months ago
- Pipeline for generating reference and perturbed sequences for input into predictive models.☆11Updated 10 months ago
- Feature-rich Python implementation of the tximport package for gene count estimation.☆37Updated 2 weeks ago
- Flexible analysis of high-content CRISPR screening☆31Updated last month
- Comparison of Adaptive Immune Receptor Repertoires☆28Updated 8 months ago
- Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.☆19Updated 3 weeks ago
- Code repository for the manuscript: Nucleotide dependency analysis of DNA language models reveals genomic functional elements☆16Updated 6 months ago
- code to run EPInformer for gene expression prediction and gene-enhancer link prediction☆43Updated 2 weeks ago
- ☆40Updated this week
- Saluki, a method to predict mRNA half-lives from sequence☆25Updated 3 years ago
- Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"☆22Updated last year
- accurate prediction of promoter activity and variant effects from massive parallel reporter assays☆42Updated 3 months ago
- VDJ Clonotyping & Analysis Tools☆49Updated 7 months ago
- ☆18Updated last year
- A Python package for gene network analysis☆32Updated 3 years ago
- Infer selection pressures on features of amino acid CDR3 sequences.☆24Updated last year