Alternatives and similar repositories for DeepND

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

• evanpeikon / SmallSeqFlow
  SmallSeqFlow: A streamlined, notebook-based bulk RNA-seq analysis pipeline optimized for small-sample studies with modular extensions.
  ☆14Updated 7 months ago
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆54Updated 5 years ago
• shendurelab / MPRAflow
  A portable, flexible, parallelized tool for complete processing of massively parallel reporter assay data
  ☆33Updated 8 months ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 3 years ago
• BIMSBbioinfo / maui
  Multi-omics Autoencoder Integration: Deep learning-based heterogenous data analysis toolkit
  ☆49Updated 2 years ago
• epaull / TieDIE
  Tied Diffusion for Subnetwork Discovery (TieDIE)
  ☆37Updated 3 years ago
• Novartis / DRUG-seq
  DRUG (Digital RNA with pertUrbation of Genes)-seq data analysis pipeline
  ☆33Updated 6 months ago
• aggreen / MTB-CNN
  CNN models for antibiotic resistance prediction in M. tuberculosis genomes. From Green & Yoon et al (forthcoming)
  ☆26Updated 2 years ago
• kundajelab / ChromDragoNN
  Code for the paper "Integrating regulatory DNA sequence and gene expression to predict genome-wide chromatin accessibility across cellula…
  ☆44Updated 4 years ago
• cssblab / iOmicsPASS
  Data Integration tool utilizing network information for predictive analyses
  ☆16Updated 4 months ago
• cmap / cmapM
  Connectivity Map analysis in MATLAB
  ☆46Updated 3 years ago
• p-koo / learning_sequence_motifs
  "Representation Learning of Genomic Sequence Motifs with Convolutional Neural Networks" by Peter K. Koo and Sean R. Eddy
  ☆33Updated 5 years ago
• maximilianh / crisporPaper
  Code for the CRISPOR article, all data and code to create figures and analysis
  ☆44Updated 9 years ago
• immunogenomics / amp_phase1_ra
  Zhang, et al, Nature Immunology, 2019. Use single-cell transcriptomics and proteomics to study autoimmune diseases.
  ☆20Updated 6 months ago
• idekerlab / pyNBS
  Python 2.7 implementation of network-based stratification (NBS) algorithm from Hofree et al (Nature Methods 2013)
  ☆37Updated 11 months ago
• Dongwon-Lee / lsgkm
  ☆51Updated last year
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 9 months ago
• ucscXena / xenaPython
  Python API for Xena Hub
  ☆53Updated 2 years ago
• biothings / mygene.py
  mygene is an easy-to-use Python wrapper to access MyGene.Info services.
  ☆94Updated 8 months ago
• PMBio / deepcpg
  Deep neural networks for predicting CpG methylation
  ☆37Updated 8 years ago
• Xinglab / DARTS
  Deep-learning Augmented RNA-seq analysis of Transcript Splicing
  ☆114Updated last year
• openvax / neoantigen-vaccine-pipeline
  Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
  ☆84Updated last week
• fraenkel-lab / OmicsIntegrator2
  Prize-Collecting Steiner Forests for Interactomes
  ☆61Updated last year
• Center-for-Health-Data-Science / multiDGD
  ☆26Updated 4 months ago
• Oshlack / splatter-paper
  Data and analysis for the Splatter paper
  ☆29Updated 7 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated last year
• vagarwal87 / saluki_paper
  Saluki, a method to predict mRNA half-lives from sequence
  ☆25Updated 2 years ago
• CancerRxGene / gdsctools
  Tools related to the Genomics of Drug Sensitivity in Cancer (GDSC) projects (http://www.cancerrxgene.org/ )
  ☆36Updated 3 years 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
• MaayanLab / archs4
  ARCHS4 RNA-seq processing scripts and web server pages.
  ☆59Updated 4 years ago