Alternatives and similar repositories for dependencies_DNALM

Users that are interested in dependencies_DNALM are comparing it to the libraries listed below

• vagarwal87 / saluki_paper
  Saluki, a method to predict mRNA half-lives from sequence
  ☆25Updated 2 years ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 9 months ago
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆67Updated 2 years ago
• mhorlacher / rbpnet
  ☆18Updated last year
• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆42Updated 2 months ago
• kundajelab / DART-Eval
  ☆41Updated 2 months ago
• ggdna / seqwalk
  Efficient algorithms for designing orthogonal DNA sequence libraries
  ☆13Updated 11 months ago
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆54Updated 5 years ago
• p-koo / creme-nn
  https://www.biorxiv.org/content/10.1101/2023.07.03.547592v2
  ☆30Updated 8 months ago
• Genentech / polygraph
  Polygraph evaluates and compares groups of nucleic acid sequences based on their sequence and functional content for effective design of …
  ☆35Updated 5 months ago
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆22Updated last year
• jmschrei / tfmodisco-lite
  A lite implementation of tfmodisco, a motif discovery algorithm for genomics experiments.
  ☆84Updated last month
• ketringjoni / SuPreMo
  Pipeline for generating reference and perturbed sequences for input into predictive models.
  ☆11Updated 10 months ago
• karbalayghareh / GraphReg
  Chromatin interaction aware gene regulatory modeling with graph attention networks
  ☆27Updated 2 years ago
• johahi / borzoi-pytorch
  Pytorch implementation of the Borzoi model from Calico, and Flashzoi, a 3x faster Borzoi enhancement.
  ☆73Updated 2 weeks ago
• jmschrei / bpnet-lite
  This repository hosts a minimal version of a Python API for BPNet.
  ☆48Updated 3 weeks ago
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆39Updated 2 years ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆61Updated 5 months ago
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 4 years ago
• Illumina / PromoterAI
  ☆77Updated 3 months ago
• KarchinLab / mhcnuggets
  MHC Class I and Class II neoantigen binding prediction
  ☆32Updated 2 months ago
• chengl7-lab / kmap
  A tool for visualising kmers in 2D space.
  ☆10Updated 7 months ago
• ekernf01 / perturbation_benchmarking
  Comparing performance across many methodological dimensions among tools that predict RNA after TF knockdowns and overexpression.
  ☆19Updated 2 weeks ago
• pinellolab / EPInformer
  code to run EPInformer for gene expression prediction and gene-enhancer link prediction
  ☆43Updated this week
• GreiffLab / immuneSIM
  ☆38Updated last year
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 3 years ago
• jbkinney / mavenn
  MAVE-NN: genotype-phenotype maps from multiplex assays of variant effect
  ☆28Updated last month
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆54Updated 3 weeks ago
• Illumina / PrimateAI-3D
  ☆67Updated 7 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆96Updated 6 months ago