Alternatives and similar repositories for topiary

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

• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆51Updated 6 years ago
• ding-lab / hotspot3d
  3D hotspot mutation proximity analysis tool
  ☆48Updated 2 years ago
• umccr / neoantigens
  🏺 Exploring novel tumor epitope identification
  ☆36Updated 5 years ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆27Updated 2 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• cancerdatasci / ceres
  Computational correction of copy-number effect in CRISPR-Cas9 essentiality screens
  ☆30Updated 6 years ago
• openvax / neoantigen-vaccine-pipeline
  Bioinformatics pipeline for selecting patient-specific cancer neoantigen vaccines
  ☆86Updated 3 weeks ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆36Updated 4 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 3 years ago
• gtrichard / deepStats
  deepStats: a stastitical toolbox for deeptools and genomic signals
  ☆34Updated 4 years ago
• CancerRxGene / gdsctools
  Tools related to the Genomics of Drug Sensitivity in Cancer (GDSC) projects (http://www.cancerrxgene.org/ )
  ☆36Updated 3 years ago
• ICBI / neoantigeR
  a R package to identify neoantigens from NGS data
  ☆19Updated 8 years ago
• antigenomics / vdjmatch
  ⚙️ Matching T-cell repertoire against a database of TCR antigen specificities
  ☆39Updated 6 years ago
• MaayanLab / archs4
  ARCHS4 RNA-seq processing scripts and web server pages.
  ☆59Updated 4 years ago
• ElementoLab / scTCRseq
  Processing of single cell RNAseq data for the recovery of TCRs in python
  ☆29Updated 4 years ago
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆52Updated this week
• interactivereport / xOmicsShiny
  xOmicsShiny: an R Shiny application for cross-omics data analysis and pathway mapping, Bioinformatics Advances, Volume 5, Issue 1, 2025, …
  ☆33Updated 2 months ago
• uc-bd2k / GREIN
  GREIN : GEO RNA-seq Experiments Interactive Navigator
  ☆50Updated 6 years ago
• costasilvati / consexpression
  Tool for RNA-Seq analysis.
  ☆39Updated 3 years ago
• Teichlab / bracer
  BraCeR - reconstruction of B cell receptor sequences from single-cell RNAseq data
  ☆42Updated last year
• sigven / oncoEnrichR
  Explore the cancer relevance of your gene list
  ☆52Updated 2 weeks ago
• VCCRI / Falco
  A quick and flexible single-cell RNA-seq processing framework on the cloud
  ☆39Updated 5 years ago
• LukszaLab / NeoantigenEditing
  ☆20Updated 3 years ago
• ding-lab / GenomeVIP
  ☆20Updated 8 years ago
• murphycj / AGFusion
  Python package to annotate and visualize gene fusions.
  ☆64Updated last year
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆34Updated 6 years ago
• 10XGenomics / enclone
  VDJ Clonotyping & Analysis Tools
  ☆49Updated 7 months ago
• MaayanLab / maayanlab-bioinformatics
  A collection of useful functions for bioinformatics data analysis
  ☆25Updated 2 months ago
• Oshlack / Clinker
  Gene Fusion Visualiser
  ☆51Updated 2 years ago
• lcdb / lcdb-wf
  Robust, tested workflows for RNA-seq, ChIP-seq and other high-throughput sequencing analysis
  ☆23Updated this week