Alternatives and similar repositories for deepmetabolism

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

• boscoh / uniprot
  retrieve protein sequence identifiers and metadata from http://uniprot.org
  ☆67Updated 3 years ago
• maximilianh / crisporPaper
  Code for the CRISPOR article, all data and code to create figures and analysis
  ☆41Updated 9 years ago
• budach / pysster
  pysster: Learning Sequence And Structure Motifs In Biological Sequences Using Convolutional Neural Networks
  ☆86Updated 5 years ago
• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 2 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated 11 months ago
• gifford-lab / Keras-genomics
  Perform hyper-parameter tuning, training, testing and prediction with Keras
  ☆44Updated 7 years ago
• QData / DeepChrome
  Bioinformatics16: DeepChrome: Deep-learning for predicting gene expression from histone modifications
  ☆63Updated 4 years ago
• kundajelab / genomelake
  Simple and efficient access to genomic data for deep learning models.
  ☆42Updated 5 years ago
• ueser / FIDDLE
  Flexible Integration of Data with Deep LEarning
  ☆50Updated 2 years ago
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆98Updated 10 months ago
• openvax / pepdata
  Python interface to amino acid properties and IEDB
  ☆57Updated 10 months ago
• SBRG / Protein_ML
  Machine learning workflows for analyzing high-throughput protein data
  ☆26Updated 8 years ago
• SBRG / precise-db
  A high-fidelity E. coli RNA-seq compendium
  ☆32Updated 4 years ago
• xypan1232 / iDeep
  iDeep: integrated prediction of RNA-protein binding sites using deep learning
  ☆39Updated 4 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
• kipoi / models
  Model zoo for genomics
  ☆168Updated last year
• uci-cbcl / DeepCons
  Understanding sequence conservation with deep learning
  ☆20Updated 8 years ago
• MedChaabane / deepRAM
  End-to-end deep learning toolkit for predicting protein binding sites and motifs.
  ☆45Updated 6 years ago
• saketkc / pyseqlogo
  Python package to plot sequence logos
  ☆29Updated last year
• varnivey / ipanda
  insilico Pathway Activation Network Decomposition Analysis (iPANDA) package. Owned by Insilico Medicine Inc. iPANDA is a pathway analysis…
  ☆25Updated 8 years ago
• SBRG / cobrame
  A COBRApy extension for genome-scale models of metabolism and expression (ME-models)
  ☆35Updated 6 years ago
• uci-cbcl / FactorNet
  A deep learning package for predicting TF binding
  ☆42Updated 5 years ago
• vanessajurtz / lasagne4bio
  ☆107Updated 7 years ago
• IBPA / DeepPep
  Deep proteome inference from peptide profiles
  ☆13Updated 5 years ago
• cdanielmachado / reframed
  ReFramed: metabolic modeling package
  ☆59Updated 3 months ago
• GuipengLi / SharePathway
  a python package for KEGG pathway enrichment analysis with multiple gene lists.
  ☆36Updated 7 years ago
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆38Updated 2 years ago
• gecrooks / weblogo
  WebLogo 3: Sequence Logos redrawn
  ☆153Updated 3 months ago
• Benjamin-Lee / CodonAdaptationIndex
  Python Implementation of Codon Adaption Index
  ☆37Updated 2 years ago
• klamt-lab / straindesign
  StrainDesign is a python package for the computational design of metabolic networks and based on COBRApy
  ☆43Updated 5 months ago