Alternatives and similar repositories for QBRC-Neoantigen-Pipeline

Users that are interested in QBRC-Neoantigen-Pipeline are comparing it to the libraries listed below

• broadinstitute / single_cell_classification
  Methods to use SNPs or gene expression to classify single cell RNAseq to reference profiles
  ☆29Updated 5 years ago
• cboix / EPIMAP_ANALYSIS
  Epimap processing and analysis code repository
  ☆33Updated 3 years ago
• GreenleafLab / motifmatchr
  Fast motif matching in R
  ☆46Updated last year
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 4 years ago
• XSLiuLab / Seq2Neo
  Seq2Neo: a comprehensive pipeline for cancer neoantigen immunogenicity prediction
  ☆21Updated 2 years ago
• broadinstitute / Celligner_ms
  Code related to the Celligner manuscript
  ☆46Updated 4 years ago
• foreverdream2 / dysfunction_interaction_test
  ☆30Updated 7 years ago
• dakwok / SSNIP
  The Spatial Splicing-derived Neoantigen Identifier Pipeline (SSNIP) allows for the precise characterization of neoantigens derived from c…
  ☆19Updated 4 months ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆31Updated 3 years ago
• tushiqi / MAnorm2
  MAnorm2 for Normalizing and Comparing ChIP-seq Samples
  ☆32Updated 2 years ago
• GreenleafLab / chromVARmotifs
  R package with motifs for use with chromVAR
  ☆28Updated 7 years ago
• ShixiangWang / Variants2Neoantigen
  A neoantigen calling pipeline begins from variants record file (MAF) (Not maintain now)
  ☆29Updated 5 years ago
• ylab-hi / ScanNeo
  A pipeline for identifying indel derived neoantigens using RNA-Seq data
  ☆30Updated 2 years ago
• r3fang / snATAC
  <<------ Use SnapATAC!!
  ☆25Updated 6 years ago
• umccr / neoantigens
  🏺 Exploring novel tumor epitope identification
  ☆34Updated 4 years ago
• fmicompbio / monaLisa
  binned motif enrichment analysis and visualisation
  ☆41Updated 3 weeks ago
• ajitjohnson / imsig
  Immune Cell Gene Signatures for Profiling the Microenvironment of Solid Tumours
  ☆27Updated 4 years ago
• wwylab / DeMixT
  ☆36Updated last year
• lcalviell / ORFquant
  An R package for Splice-aware quantification of translation using Ribo-seq data
  ☆19Updated last year
• juliaolivieri / SpliZ_pipeline
  Code to calculate the Splicing Z Score (SpliZ) for single cell RNA-seq splicing analysis
  ☆34Updated 3 years ago
• combiz / scFlow
  Single-cell/nuclei RNA-seq analysis tools in R for a complete workflow.
  ☆57Updated last year
• mdozmorov / RNA-seq_notes
  A continually expanding collection of RNA-seq tools
  ☆51Updated 10 months ago
• PCAWG-11 / Heterogeneity
  Code accompanying Characterizing genetic intra-tumor heterogeneity across 2,658 human cancer genomes
  ☆43Updated 4 years ago
• icbi-lab / NeoFuse
  NeoFuse is a user-friendly pipeline for the prediction of fusion neoantigens from tumor RNA-seq data.
  ☆19Updated 3 years ago
• SUwonglab / PECA
  PECA is a software for inferring context specific gene regulatory network from paired gene expression and chromatin accessibility data
  ☆44Updated last year
• aertslab / GENIE3
  GENIE3 (GEne Network Inference with Ensemble of trees) R-package
  ☆37Updated 3 years ago
• wuaipinglab / ImmuCC
  Cell-Centric View of Tissue Transcriptome Measuring Cellular Compositions of Immune Microenvironment From Mouse RNA-Seq Data.
  ☆26Updated 3 years ago
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆28Updated 2 years ago
• TheJacksonLaboratory / tcga_subtype_classification
  Detecting cancer subtypes with machine learning.
  ☆10Updated 5 years ago
• bm2-lab / pTuneos
  pTuneos: prioritizing Tumor neoantigen from next-generation sequencing data
  ☆36Updated 3 years ago