Alternatives and similar repositories for ProGeo-neo

Users that are interested in ProGeo-neo are comparing it to the libraries listed below

• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆27Updated last year
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆28Updated 3 years ago
• umccr / neoantigens
  🏺 Exploring novel tumor epitope identification
  ☆34Updated 4 years ago
• tianshilu / QBRC-Neoantigen-Pipeline
  QBRC Neoantigen calling pipeline with CSiN calculation embedded
  ☆24Updated 3 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• bm2-lab / pTuneos
  pTuneos: prioritizing Tumor neoantigen from next-generation sequencing data
  ☆36Updated 3 years ago
• genevol-usp / HLApers
  ☆13Updated 2 years ago
• snakemake-workflows / dna-seq-neoantigen-prediction
  Snakemake workflow for neoantigen prediction
  ☆14Updated last year
• TRON-Bioinformatics / EasyFuse
  EasyFuse is a pipeline for accurate fusion gene detection from RNA-seq data.
  ☆59Updated 5 months ago
• BGI2016 / PSSMHCpan
  A novel PSSM based software for predicting class I peptide-HLA binding affinity
  ☆17Updated 8 years ago
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 7 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• andrewrech / antigen.garnish
  ☆48Updated 2 years ago
• jsh58 / DMRfinder
  Identifying differentially methylated regions from MethylC-seq (bisulfite-sequencing) data
  ☆28Updated last year
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆50Updated 7 months ago
• ChrisMaherLab / INTEGRATE-Neo
  ☆19Updated 7 years ago
• bm2-lab / neoFusion
  ☆13Updated 4 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆50Updated 5 years ago
• ding-lab / PanCanAtlasGermline
  ☆44Updated 6 years ago
• namphuon / ViFi
  Pipeline for identifying viral integration and fusion mRNA reads from NGS data. Manuscript is currently in preparation.
  ☆28Updated 3 years ago
• jason-weirather / hla-polysolver
  Fork of the Polysolver project
  ☆31Updated 5 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆31Updated 4 years ago
• XSLiuLab / Seq2Neo
  Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction
  ☆21Updated 2 years ago
• aeeckhou / shallowHRD
  This method uses shallow Whole Genome Sequencing (sWGS) and the segmentation of a genomic profile to assess the Homologous Recombination …
  ☆34Updated 10 months ago
• cancerit / alleleCount
  Support code for NGS copy number algorithms. Takes a file of locations and a [cr|b]am file and generates a count of coverage of each alle…
  ☆45Updated 2 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 2 years ago
• ShixiangWang / sigflow
  Sigflow: Streamline Analysis Workflows for Mutational Signatures, https://github.com/ShixiangWang/sigflow/pkgs/container/sigflow
  ☆27Updated 7 months ago
• ding-lab / somaticwrapper
  Detect somatic variants from tumor and normal WGS/WXS data
  ☆16Updated 3 weeks ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated last year