Alternatives and similar repositories for utility

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

• gagneurlab / concise
  Concise: Keras extension for regulatory genomics
  ☆35Updated 2 years ago
• ueser / FIDDLE
  Flexible Integration of Data with Deep LEarning
  ☆50Updated 2 years ago
• kundajelab / dfim
  Deep Feature Interaction Maps (DFIM)
  ☆53Updated 6 years ago
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆32Updated 4 years ago
• maximilianh / crisporPaper
  Code for the CRISPOR article, all data and code to create figures and analysis
  ☆40Updated 9 years ago
• jpiper / pyDNase
  Python module for the easy handling and analysis of DNase-seq data
  ☆37Updated 6 years ago
• openvax / vaxrank
  Ranked vaccine peptides for personalized cancer immunotherapy
  ☆58Updated 9 months 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
• kundajelab / coda
  Coda: a convolutional denoising algorithm for genome-wide ChIP-seq data
  ☆33Updated 8 years ago
• babelomics / babelomics
  ☆41Updated 7 years ago
• Dongwon-Lee / lsgkm
  ☆51Updated last year
• greenelab / multi-plier
  An unsupervised transfer learning approach for rare disease transcriptomics
  ☆45Updated 5 years ago
• lucapinello / Haystack
  Epigenetic Variability and Transcription Factor Motifs Analysis Pipeline
  ☆31Updated 7 years ago
• VCCRI / Falco
  A quick and flexible single-cell RNA-seq processing framework on the cloud
  ☆39Updated 5 years ago
• lehtiolab / proteogenomics-analysis-workflow
  IPAW: a Nextflow workflow for proteogenomics
  ☆28Updated 11 months ago
• thucombio / deepnet-rbp
  ☆20Updated 10 years ago
• jrderuiter / pybiomart
  A simple pythonic interface to biomart.
  ☆56Updated 5 years ago
• uci-cbcl / FactorNet
  A deep learning package for predicting TF binding
  ☆42Updated 5 years ago
• openvax / neoantigen-vaccine-pipeline
  Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
  ☆83Updated 6 months ago
• SchulzLab / TEPIC
  Annotation of genomic regions using transcription factor binding sites and epigenetic data
  ☆40Updated 3 years ago
• cgat-developers / cgat-core
  Core functionality of the CGAT code
  ☆33Updated this week
• shwhalen / ml-pitfalls
  Notebooks accompanying the paper "Navigating the pitfalls of applying machine learning in genomics"
  ☆45Updated last year
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated 11 months ago
• alexfields / ORF-RATER
  Regression-based annotation of protein-coding sequences from ribosome profiling data
  ☆32Updated 5 years ago
• pinellolab / CRISPRitz
  Tool package to perform in-silico CRISPR analysis and assessment
  ☆29Updated last year
• kundajelab / genomelake
  Simple and efficient access to genomic data for deep learning models.
  ☆43Updated 5 years ago
• brentp / cruzdb
  python access to UCSC genomes database
  ☆136Updated 4 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆51Updated 5 years ago
• openvax / gtfparse
  Parsing tools for GTF (gene transfer format) files
  ☆121Updated 5 months ago
• openvax / varcode
  Library for manipulating genomic variants and predicting their effects
  ☆84Updated last year