Alternatives and similar repositories for PrimateAI:

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

• mikessh / vdjtools
  [REPLACED by https://github.com/antigenomics/mirpy] Post-analysis of immune repertoire sequencing data
  ☆133Updated 8 months ago
• Xinglab / DARTS
  Deep-learning Augmented RNA-seq analysis of Transcript Splicing
  ☆111Updated last year
• FunctionLab / ExPecto
  predicting expression effects of human genome variants ab initio from sequence
  ☆126Updated 3 weeks ago
• shwhalen / targetfinder
  ☆83Updated 4 years ago
• tkzeng / Pangolin
  Pangolin is a deep-learning method for predicting splice site strengths.
  ☆66Updated 8 months ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆195Updated 11 months ago
• FunctionLab / sei-framework
  code to run sei and obtain sei and sequence class predictions
  ☆97Updated 2 years ago
• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆110Updated 5 months ago
• griffithlab / pVACtools
  ☆149Updated this week
• kundajelab / ENCODE_downloader
  Downloader for ENCODE
  ☆31Updated 4 years ago
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆76Updated 2 months ago
• kundajelab / tfmodisco
  TF MOtif Discovery from Importance SCOres
  ☆133Updated last year
• sebriois / biomart
  Python biomart API
  ☆65Updated last year
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆123Updated 6 months ago
• openvax / mhctools
  Python interface to running command-line and web-based MHC binding predictors
  ☆94Updated 4 months ago
• nunofonseca / irap
  integrated RNA-seq Analysis Pipeline
  ☆85Updated 6 years ago
• konstantint / pyliftover
  Pure-python implementation of UCSC liftOver genome coordinate conversion
  ☆93Updated last year
• ding-lab / hotspot3d
  3D hotspot mutation proximity analysis tool
  ☆46Updated last year
• snugel / cas-offinder
  An ultrafast and versatile algorithm that searches for potential off-target sites of CRISPR/Cas-derived RNA-guided endonucleases.
  ☆88Updated 2 years ago
• gagneurlab / MMSplice_MTSplice
  Tissue-specific variant effect predictions on splicing
  ☆40Updated last year
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆109Updated 6 years ago
• calico / borzoi
  RNA-seq prediction with deep convolutional neural networks.
  ☆121Updated 2 months ago
• antigenomics / vdjdb-db
  🗂️ [vdjdb.cdr3.net is up and running] Git-based TCR database storage & management. Submissions welcome!
  ☆134Updated this week
• aquaskyline / Clairvoyante
  Clairvoyante: a multi-task convolutional deep neural network for variant calling in Single Molecule Sequencing
  ☆169Updated last year
• Illumina / PrimateAI-3D
  ☆64Updated 7 months ago
• r-bioinformatics / edgePy
  A Python implementation of edgeR for differential expression analysis
  ☆100Updated 5 years ago
• Teichlab / tracer
  TraCeR - reconstruction of T cell receptor sequences from single-cell RNAseq data
  ☆126Updated last year
• openvax / gtfparse
  Parsing tools for GTF (gene transfer format) files
  ☆116Updated 10 months ago
• deeptools / pyBigWig
  A python extension for quick access to bigWig and bigBed files
  ☆226Updated last month
• broadinstitute / ichorCNA
  Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
  ☆175Updated 11 months ago