kundajelab / genomelakeView external linksLinks
Simple and efficient access to genomic data for deep learning models.
☆42Jan 9, 2020Updated 6 years ago
Alternatives and similar repositories for genomelake
Users that are interested in genomelake are comparing it to the libraries listed below
Sorting:
- Yet Another Motif Discovery Algorithm☆53Jan 10, 2019Updated 7 years ago
- Standard set of data-loaders for training and making predictions for DNA sequence-based models.☆83Sep 3, 2024Updated last year
- Generate mutated sequence files from a reference genome.☆11Dec 26, 2022Updated 3 years ago
- Perform hyper-parameter tuning, training, testing and prediction with Keras☆44May 29, 2018Updated 7 years ago
- pysster: Learning Sequence And Structure Motifs In Biological Sequences Using Convolutional Neural Networks☆86Oct 22, 2019Updated 6 years ago
- Model zoo for genomics☆173Dec 17, 2025Updated last month
- "Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy☆34Jan 7, 2020Updated 6 years ago
- GenomeTools: Scripts and Classes for Working with Genomic Data☆12Jun 7, 2018Updated 7 years ago
- A python library for creating simulated regulatory DNA sequences☆39Feb 22, 2023Updated 2 years ago
- A set of scripts to help automate the construction of data sets for multi-gene phylogenetic analyses.☆13Mar 13, 2019Updated 6 years ago
- ☆10May 16, 2020Updated 5 years ago
- Variant Alert!, a framework to monitor every significant alteration in variant classification and gene-disease association between two ve…☆14Jul 19, 2021Updated 4 years ago
- Sequence data label generation and ingestion into deep learning models☆12Nov 17, 2021Updated 4 years ago
- Viral genome coverage evaluation for metagenomic diagnostics☆27Aug 19, 2025Updated 5 months ago
- Deep learning infrastructure for genomics☆257Sep 29, 2021Updated 4 years ago
- Tissue-specific variant effect predictions on splicing☆42May 23, 2023Updated 2 years ago
- conda recipes for genomic data☆84Jul 31, 2021Updated 4 years ago
- Animated GIF of flow cell performance from sequencing summary file.☆13Feb 20, 2018Updated 7 years ago
- Quantitative Methods in Genetics and Genomics Course 2020☆23Mar 27, 2020Updated 5 years ago
- A method of assessing sequence complexity based on kmer frequencies☆33Apr 9, 2018Updated 7 years ago
- A snakemake-based pipeline for assembling and polishing long genomes from long nanopore reads☆67Nov 4, 2021Updated 4 years ago
- Mostly deprecated in favor of : https://github.com/hbc/bcbioRNASeq. Quality control, differential gene/transcript expression and pathway …☆24Dec 11, 2017Updated 8 years ago
- Concise: Keras extension for regulatory genomics☆35Dec 26, 2022Updated 3 years ago
- Efficient handling of FASTQ files from Python☆51Nov 28, 2025Updated 2 months ago
- Minhash and maxhash library in Python, combining flexibility, expressivity, and performance.☆22Dec 14, 2024Updated last year
- DSDE Deep Learning Club☆40Mar 28, 2019Updated 6 years ago
- Avocado is a multi-scale deep tensor factorization model that learns a latent representation of the human epigenome and enables imputatio…☆120Mar 17, 2022Updated 3 years ago
- LAAVA: Long-read AAV Analysis☆13Dec 9, 2025Updated 2 months ago
- A probabilistic factor model for spatial transcriptomics data with subcellular resolution☆25May 3, 2023Updated 2 years ago
- A community menagarie of automated variant validations using bcbio and the Common Workflow Language☆21Nov 3, 2021Updated 4 years ago
- A deep learning package for predicting TF binding☆42Jan 23, 2020Updated 6 years ago
- A toolkit to learn how to model and interpret regulatory sequence data using deep learning.☆264Aug 1, 2023Updated 2 years ago
- Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps☆124Nov 8, 2018Updated 7 years ago
- Open compressed files in Python☆81Oct 12, 2025Updated 4 months ago
- RNA-Seq normalization and quantification pipeline☆12Nov 25, 2024Updated last year
- ☆10Oct 6, 2020Updated 5 years ago
- ☆11Mar 10, 2024Updated last year
- A useful tool for shuffling biological sequences while preserving the k-let counts☆14Apr 23, 2024Updated last year
- A flexible python program for generating figures from regions of the genome.☆13Apr 6, 2019Updated 6 years ago