Alternatives and similar repositories for kmer

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

• moss-lab / ScanFold
  ScanFold is an RNA sequence scanning pipeline which attempts to identify potentially functional RNA secondary structures. This is done by…
  ☆19Updated 2 years ago
• kipoi / kipoiseq
  Standard set of data-loaders for training and making predictions for DNA sequence-based models.
  ☆82Updated 9 months ago
• vagarwal87 / Xpresso
  Predicting gene expression levels from genomic sequences
  ☆53Updated 5 years ago
• lwgray / pyEntrezId
  Converts Ensembl, Uniprot, and HGNC IDs to Entrez Gene Id
  ☆45Updated last year
• kundajelab / simdna
  A python library for creating simulated regulatory DNA sequences
  ☆38Updated 2 years ago
• Illumina / PrimateAI-3D
  ☆66Updated 4 months ago
• ntranoslab / esm-variants
  ☆74Updated last year
• Hughes-Genome-Group / deepC
  A neural network framework for predicting the Hi-C chromatin interactions from megabase scale DNA sequence
  ☆33Updated last year
• RTH-tools / crispron
  CRISPR Cas9 ontarget prediction software
  ☆26Updated 3 months ago
• zwang-bioinformatics / GOGO
  An Improved Algorithm to Measure the Semantic Similarity of Gene Ontology Terms
  ☆18Updated 5 years ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆105Updated 2 years ago
• johli / aparent
  APA Regression Net - Predict and Engineer Alternative Polyadenylation
  ☆39Updated 3 years ago
• dansondergaard / tmhmm.py
  A transmembrane helix finder in Python 3.
  ☆38Updated last year
• bernardo-de-almeida / DeepSTARR
  Deep learning model built to quantitatively predict the activities of developmental and housekeeping enhancers from DNA sequence in Droso…
  ☆63Updated 2 years ago
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆128Updated 5 months ago
• sjgosai / boda2
  Computational Optimization of DNA Activity (CODA)
  ☆60Updated 2 months ago
• ShenLab-Genomics / SpliceTransformer
  SpliceTransformer(SpTransformer) is a deep learning tool to predict tissue specific splicing site from pre-mRNA sequence
  ☆25Updated 7 months ago
• de-Boer-Lab / random-promoter-dream-challenge-2022
  ☆29Updated 5 months ago
• ML4GLand / EUGENe
  Elucidating the Utility of Genomic Elements with Neural Nets
  ☆70Updated 6 months ago
• arefeen / DeepPASTA
  ☆10Updated 5 years ago
• dceoy / pdbio
  Pandas-based Data Handler for VCF, BED, and SAM Files
  ☆32Updated 3 years ago
• johli / scrambler
  Interpretation by Deep Generative Masking for Biological Sequences
  ☆37Updated 3 years ago
• urmi-21 / orfipy
  Fast and flexible ORF finder
  ☆71Updated 3 years ago
• nf-core / epitopeprediction
  A bioinformatics best-practice analysis pipeline for epitope prediction and annotation
  ☆45Updated last week
• QData / DeepDiffChrome
  "DeepDiff: Deep-learning for predicting Differential gene expression from histone modifications", Bioinformatics, Volume 34, Issue 17,
  ☆21Updated 5 years ago
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆96Updated 8 months ago
• gagneurlab / MMSplice_MTSplice
  Tissue-specific variant effect predictions on splicing
  ☆42Updated 2 years ago
• KarchinLab / mhcnuggets
  MHC Class I and Class II neoantigen binding prediction
  ☆30Updated 2 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
  ☆40Updated 8 years ago