Alternatives and similar repositories for evolution

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

• autosome-ru / LegNet
  accurate prediction of promoter activity and variant effects from massive parallel reporter assays
  ☆43Updated 6 months ago
• uio-bmi / immuneML
  immuneML is a platform for machine learning analysis of adaptive immune receptor repertoire data.
  ☆73Updated this week
• KarchinLab / bigmhc
  BigMHC predicts MHC-I (neo)epitope presentation and immunogenicity
  ☆58Updated 2 weeks ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆66Updated 9 months ago
• ntranoslab / esm-variants
  ☆85Updated 2 years ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆34Updated 11 months ago
• johli / seqprop
  Stochastic Sequence Propagation - A Keras Model for optimizing DNA, RNA and protein sequences based on a predictor
  ☆50Updated last year
• xinyu-dev / igblast
  Detailed explanation on how to setup database for NCBI IgBlast executable, and using it in Python
  ☆31Updated 3 years ago
• GfellerLab / MixMHC2pred
  HLA-II ligand predictor.
  ☆45Updated 2 years ago
• pjsample / human_5utr_modeling
  Modeling of human 5′ UTRs enables the design of new sequences for target levels of translation and 5′ UTR variant prediction.
  ☆55Updated 6 years ago
• kundajelab / bpnet
  Toolkit to train base-resolution deep neural networks on functional genomics data and to interpret them
  ☆169Updated 2 months ago
• wukevin / tcr-bert
  Large language modeling applied to T-cell receptor (TCR) sequences.
  ☆57Updated 3 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆83Updated last year
• moss-lab / ScanFold
  ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by…
  ☆20Updated 3 years ago
• sidhomj / DeepTCR
  Deep Learning Methods for Parsing T-Cell Receptor Sequencing (TCRSeq) Data
  ☆123Updated 3 months ago
• eternagame / draw_rna
  Draw RNA secondary structures in python.
  ☆49Updated 6 months ago
• jzhoulab / puffin
  deep learning-inspired explainable sequence model for transcription initiation
  ☆100Updated 10 months ago
• epigen / KPNN
  Knowledge-primed neural networks
  ☆38Updated 2 years ago
• mnielLab / NetTCR-2.0
  NetTCR-2.0. Sequence-based prediction of peptide-TCR binding
  ☆35Updated 3 years ago
• mit6874 / mit6874.github.io
  ☆50Updated 4 years ago
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 4 years ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆110Updated 3 years ago
• tianshilu / pMTnet
  Deep Learning the T Cell Receptor Binding Specificity of Neoantigen
  ☆88Updated 3 years ago
• kundajelab / DART-Eval
  ☆42Updated 5 months ago
• dincarnato / RNAFramework
  RNA structure probing and post-transcriptional modifications mapping high-throughput data analysis
  ☆43Updated 2 weeks ago
• ychuest / Awesome-LLMs-meet-genomes
  Explore a comprehensive collection of basic theories, applications, papers, and best practices about Large Language Models (LLMs) in geno…
  ☆115Updated last week
• dohlee / chromoformer
  The official code implementation for Chromoformer in PyTorch. (Lee et al., Nature Communications. 2022)
  ☆36Updated 2 years ago
• tanjimin / C.Origami
  C.Origami, a prediction and screening framework for cell type-specific 3D chromatin structure.
  ☆82Updated last year
• JanZrimec / DeepExpression
  ☆33Updated 3 years ago
• OATML-Markslab / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆187Updated last year