Alternatives and similar repositories for bioseq

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

• lvrcek / GNNome-assembly
  Learning to untangle genome assembly with graph neural networks.
  ☆72Updated 11 months ago
• jmschrei / ledidi
  Ledidi turns any machine learning model into a biological sequence editor, allowing you to design sequences with desired properties.
  ☆92Updated 4 months ago
• lbcb-sci / GNNome
  A framework for training graph neural networks to untangle assembly graphs obtained from OLC-based de novo genome assemblers.
  ☆48Updated last month
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆39Updated 2 years ago
• liudan111 / EvoMIL
  Prediction of virus-host association using protein language models and multiple instance learning
  ☆20Updated last year
• mourisl / MSAplot
  Plot multiple sequence alignment (MSA)
  ☆15Updated last year
• HKU-BAL / Clair3-Trio
  Clair3-Trio: variant calling in trio using Nanopore long-reads
  ☆16Updated last year
• amirmohan / SPROUT
  SPROUT is a machine learning tool to predict the DNA repair outcome in CRISPR experiments.
  ☆16Updated 4 years ago
• OATML / EVE
  Official repository for the paper "Large-scale clinical interpretation of genetic variants using evolutionary data and deep learning". Jo…
  ☆65Updated 3 years ago
• pangenome / pggb-paper
  The PanGenome Graph Builder
  ☆16Updated last year
• amberT15 / LLM_eval
  Code repository for study ''Evaluating the representational power of pre-trained DNA language models for regulatory genomics"
  ☆22Updated last year
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated last year
• IntelLabs / Open-Omics-Acceleration-Framework
  Intel lab's open sourced data science framework for accelerating digital biology
  ☆49Updated last week
• regev-lab / interpretable-splicing-model
  Interpretable splicing model
  ☆20Updated 2 years ago
• althonos / lightmotif
  A lightweight platform-accelerated library for biological motif scanning using position weight matrices.
  ☆56Updated 2 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 6 months ago
• jambler24 / GenGraph
  A repository for the GenGraph toolkit for the creation and manipulation of graph genomes
  ☆51Updated 4 years ago
• lucidrains / enformer-tensorflow-sonnet-training-script
  The full training script for Enformer - Tensorflow Sonnet
  ☆18Updated 3 years ago
• broadinstitute / adapt
  A package for designing activity-informed nucleic acid diagnostics for viruses.
  ☆34Updated 2 years ago
• macwiatrak / Bacformer
  Modeling whole bacterial genome as a sequence of proteins.
  ☆62Updated last week
• minmarg / comer2
  Fast, sensitive and accurate protein remote homology search on GPUs
  ☆16Updated last year
• TattaBio / DGEB
  Diverse Genomic Embedding Benchmark
  ☆47Updated last month
• Illumina / PrimateAI-3D
  ☆70Updated 7 months ago
• ihh / bilby
  Jax code for functional genomics ML
  ☆14Updated 7 months ago
• calico / baskerville
  Machine learning methods for DNA sequence analysis.
  ☆55Updated last month
• etirouthier / keras_dna
  ☆25Updated 4 years ago
• gsneha26 / urWGS
  Ultra rapid nanopore whole genome sequencing pipeline, published in https://www.nature.com/articles/s41587-022-01221-5
  ☆19Updated last year
• apcamargo / RNAsamba
  A tool for computing the coding potential of RNA transcript sequences using deep learning classification model
  ☆55Updated 3 years ago
• biagent-dev / bia
  BioInformatics Agent (BIA): Unleashing the Power of Large Language Models to Reshape Bioinformatics Workflow
  ☆38Updated last year
• pinellolab / GRAFIMO
  GRAph-based Finding of Individual Motif Occurrences
  ☆31Updated last year