Modeling the genomic regulatory codes of fly, mouse, worm, and fish with deep learning
☆17Apr 6, 2021Updated 5 years ago
Alternatives and similar repositories for DeepArk
Users that are interested in DeepArk are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Code for reproducing the Sei manuscript results☆17Jan 25, 2022Updated 4 years ago
- ☆14Sep 1, 2024Updated last year
- Code necessary to reproduce experiments in "FloraBERT: cross-species transfer learning with attention-based neural networks for gene expr…☆13Jul 6, 2022Updated 4 years ago
- PyRice is an API to access some Rice public databases at the same time with consistent output. PyRice design is modular and implements a …☆13Dec 12, 2024Updated last year
- A python tool to evaluate genomic prediction in complex scenarios☆37Oct 18, 2022Updated 3 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Scripts for building computational models of gene regulation with tensorflow☆27May 3, 2023Updated 3 years ago
- predicting expression effects of human genome variants ab initio from sequence☆138Jan 28, 2025Updated last year
- BPNet manuscript code.☆12Dec 1, 2020Updated 5 years ago
- R package for distinguishing cells from background barcodes in droplet-based single-cell RNA-seq data☆11Apr 19, 2023Updated 3 years ago
- Adaptive haplotype assembly for efficiently leveraging high coverage in long reads☆13Sep 4, 2018Updated 7 years ago
- Javascript package for embedding sequence logos☆19Jun 16, 2025Updated last year
- Analysis repository for "Droplet-based combinatorial indexing for massive scale single-cell epigenomics"☆11Sep 30, 2019Updated 6 years ago
- exploratory scripts for clustering ccs amplicon data☆11Feb 2, 2021Updated 5 years ago
- Bedfile perturbation tool☆17Mar 6, 2026Updated 5 months ago
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- DeepVariant-on-Spark is a germline short variant calling pipeline that runs Google DeepVariant on Apache Spark at scale.☆12Jul 4, 2026Updated last month
- PECAT, a phased error correct and assembly tool☆68Dec 8, 2025Updated 8 months ago
- A DL-based framework for sequence and shape motif identification in the human genome☆12May 26, 2023Updated 3 years ago
- Reliable Association INference By Optimizing Weights with R (R package for SNP-set GWAS and multi-kernel mixed model)☆24Aug 21, 2026Updated last week
- CORNAS is a fast method for reliable DEG calls in unreplicated conditions.☆13Jul 14, 2019Updated 7 years ago
- Project description and analytic scripts for cis/trans regulation of fiber development in G. hirsutum☆18Dec 19, 2023Updated 2 years ago
- This repository contains code for the evaluation of epithelial-to-mesenchymal transition states in cancer.☆13Jan 24, 2023Updated 3 years ago
- Code and custom scripts relevant to gnomAD-SV (Collins*, Brand*, et al., 2020)☆38Jun 19, 2020Updated 6 years ago
- ☆36Mar 2, 2021Updated 5 years ago
- Deploy open-source AI quickly and easily - Special Bonus Offer • AdRunpod Hub is built for open source. One-click deployment and autoscaling endpoints without provisioning your own infrastructure.
- Program for finding horizontal gene transfer using BLAST result☆11May 26, 2023Updated 3 years ago
- represent each cell in UMAP plots as a pie chart☆16Sep 27, 2021Updated 4 years ago
- Demo OS for multi tasks☆10Apr 7, 2020Updated 6 years ago
- RNAseq analysis with Hisat2, stringtie, and ballgown☆17Aug 9, 2019Updated 7 years ago
- Code for differential splicing comparison paper (Soneson, Matthes, et al.)☆20Jun 23, 2016Updated 10 years ago
- Codebase for the domain adaptation (cross-species TF binding prediction) project.☆12Aug 29, 2022Updated 4 years ago
- Companion to "A genome-wide almanac of co-essential modules assigns function to uncharacterized genes" (https://doi.org/10.1101/827071)☆27Jul 19, 2022Updated 4 years ago
- Protocol of the analysis of iTRAQ/TMT proteomics data including quantification, statistical analysis and maybe clustering☆12May 4, 2019Updated 7 years ago
- A complete Snakemake pipeline for detecting allele specific expression in RNA-seq☆10Jul 10, 2021Updated 5 years ago
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- A deep learning package for predicting TF binding☆43Jan 23, 2020Updated 6 years ago
- Source code and binaries for the SOAP2 alignment tool developed by BGI.☆10Dec 22, 2023Updated 2 years ago
- A series of tools and pipelines for genotyping MHC / HLA genes and alleles using SMRT Sequencing☆22Aug 29, 2016Updated 10 years ago
- A method for measuring chromosome-specific telomere length from long reads☆22May 20, 2024Updated 2 years ago
- https://www.kaggle.com/c/nbme-score-clinical-patient-notes☆10Sep 1, 2022Updated 3 years ago
- GenomeThreader gene prediction software.☆14Nov 10, 2025Updated 9 months ago
- Framework for integrating heterogeneous modalities of data☆18Sep 17, 2022Updated 3 years ago