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
  ☆26Updated last year
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆28Updated 3 years ago
• umccr / neoantigens
  🏺 Exploring novel tumor epitope identification
  ☆35Updated 4 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• bm2-lab / neoFusion
  ☆13Updated 4 years ago
• BGI2016 / PSSMHCpan
  A novel PSSM based software for predicting class I peptide-HLA binding affinity
  ☆17Updated 7 years ago
• tianshilu / QBRC-Neoantigen-Pipeline
  QBRC Neoantigen calling pipeline with CSiN calculation embedded
  ☆24Updated 3 years ago
• ChrisMaherLab / INTEGRATE-Neo
  ☆19Updated 7 years ago
• icbi-lab / nextNEOpi
  nextNEOpi: a comprehensive pipeline for computational neoantigen prediction
  ☆68Updated 2 months ago
• icbi-lab / Immunophenogram
  ☆40Updated 6 years ago
• bm2-lab / pTuneos
  pTuneos: prioritizing Tumor neoantigen from next-generation sequencing data
  ☆35Updated 3 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆29Updated 2 years ago
• broadinstitute / gistic2
  Genomic Identification of Significant Targets in Cancer (GISTIC), version 2
  ☆49Updated 2 years ago
• andrewrech / antigen.garnish
  ☆47Updated 2 years ago
• ding-lab / PanCanAtlasGermline
  ☆43Updated 6 years ago
• getzlab / MutSig2CV
  MutSig2CV from Lawrence et al. 2014
  ☆31Updated 4 years ago
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• ratschlab / pancanatlas_code_public
  Public repository containing research code for the TCGA PanCanAtlas Splicing project
  ☆41Updated 4 years 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…
  ☆43Updated 2 years ago
• griffithlab / pmbio.org
  Website for the precision medicine workshop
  ☆44Updated 3 months ago
• raphael-group / machina
  Framework for Metastatic And Clonal History INtegrative Analysis
  ☆35Updated 3 years ago
• TheJacksonLaboratory / JAXBD2K-ShortCourse
  This repository contains course materials from JAX-BD2K workshop.
  ☆31Updated 5 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆26Updated 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 …
  ☆33Updated 7 months ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆49Updated 5 years ago
• farkkilab / scarHRD
  Package for calculation of Homologous Recombination Deficiency
  ☆13Updated 4 years ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated last month
• kensung-lab / SurVirus
  ☆17Updated 3 years ago
• SamBuckberry / RUN-WGCNA
  Wrapper R scripts for performing a weighted-gene co-expression network analysis (WGCNA)
  ☆28Updated 9 years ago
• elakatos / NeoepProcessing
  Collection of scripts for pre- and postprocessing neoantigen discovery calls.
  ☆9Updated 5 years ago