Alternatives and similar repositories for neoantigens

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

• tianshilu / QBRC-Neoantigen-Pipeline
  QBRC Neoantigen calling pipeline with CSiN calculation embedded
  ☆24Updated 3 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 3 years ago
• LukszaLab / NeoantigenEditing
  ☆20Updated 3 years ago
• andrewrech / antigen.garnish
  ☆49Updated 3 years ago
• uc-bd2k / GREIN
  GREIN : GEO RNA-seq Experiments Interactive Navigator
  ☆50Updated 6 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆52Updated last month
• Xinglab / IRIS
  IRIS: Isoform peptides from RNA splicing for Immunotherapy target Screening
  ☆27Updated last year
• saezlab / cosmosR
  COSMOS (Causal Oriented Search of Multi-Omic Space) is a method that integrates phosphoproteomics, transcriptomics, and metabolomics data…
  ☆63Updated last month
• wuaipinglab / ImmuCC
  Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data.
  ☆26Updated 4 years ago
• broadinstitute / single_cell_classification
  Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles
  ☆30Updated 5 years ago
• antigenomics / vdjmatch
  ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
  ☆39Updated 7 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• nf-core / scflow
  Please consider using/contributing to https://github.com/nf-core/scdownstream
  ☆26Updated last year
• alexfields / ORF-RATER
  Regression-based annotation of protein-coding sequences from ribosome profiling data
  ☆32Updated 5 years ago
• MiraldiLab / maxATAC
  Transcription Factor Binding Prediction from ATAC-seq and scATAC-seq with Deep Neural Networks
  ☆29Updated this week
• frankligy / SNAF
  Splicing Neo Antigen Finder (SNAF) is an easy-to-use Python package to identify splicing-derived tumor neoantigens from RNA sequencing da…
  ☆50Updated 9 months ago
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 3 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆51Updated 6 years ago
• angelettilab / scMouseBcellFlu
  ☆18Updated 3 years ago
• broadinstitute / Celligner_ms
  Code related to the Celligner manuscript
  ☆46Updated 5 years ago
• aertslab / GENIE3
  GENIE3 (GEne Network Inference with Ensemble of trees) R-package
  ☆37Updated 3 years ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• pablo-gar / somatic_mutations_GTEx
  Methods and analysis for Garcia-Nieto, et al. Somatic mutations
  ☆16Updated 5 years ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆57Updated last year
• BioinformaticsFMRP / TCGAWorkflow
  TCGA Workflow: Analyze cancer genomics and epigenomics data using Bioconductor packages
  ☆49Updated 2 years ago
• hukai916 / scATACpipe
  ☆27Updated last year
• bm2-lab / MUSIC
  model-based understanding of single-cell CRISPR screening
  ☆26Updated 11 months ago
• dakwok / SSNIP
  The Spatial Splicing-derived Neoantigen Identifier Pipeline (SSNIP) allows for the precise characterization of neoantigens derived from c…
  ☆20Updated 7 months ago
• XSLiuLab / Seq2Neo
  Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction
  ☆21Updated 2 years ago
• dieterich-lab / circtools
  circtools: a modular, python-based framework for circRNA-related tools that unifies several functionalities in a single, command line dri…
  ☆31Updated last year