griffithlab / pVACtools

Related projects ⓘ

Alternatives and complementary repositories for pVACtools

• MathOnco / NeoPredPipe
  Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
  ☆107Updated 2 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆171Updated this week
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆190Updated 8 months ago
• broadinstitute / ichorCNA
  Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
  ☆167Updated 8 months ago
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆142Updated last year
• ConesaLab / SQANTI3
  Tool for the Quality Control of Long-Read Defined Transcriptomes
  ☆199Updated this week
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆262Updated 5 months ago
• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆141Updated 2 weeks ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆122Updated 4 years ago
• VanLoo-lab / ascat
  ASCAT R package
  ☆170Updated 3 weeks ago
• deeptools / HiCExplorer
  HiCExplorer is a powerful and easy to use set of tools to process, normalize and visualize Hi-C data.
  ☆233Updated last month
• mikessh / vdjtools
  Post-analysis of immune repertoire sequencing data
  ☆131Updated 5 months ago
• TrinityCTAT / Trinity_CTAT
  ☆115Updated last year
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆94Updated 6 months ago
• FredHutch / SEACR
  SEACR: Sparse Enrichment Analysis for CUT&RUN
  ☆104Updated last year
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆205Updated 4 months ago
• ENCODE-DCC / rna-seq-pipeline
  ☆141Updated 2 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆121Updated 3 months ago
• htseq / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆94Updated last week
• AlexandrovLab / SigProfilerExtractor
  SigProfilerExtractor allows de novo extraction of mutational signatures from data generated in a matrix format. The tool identifies the n…
  ☆154Updated this week
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆226Updated 3 weeks ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆154Updated last year
• AstraZeneca-NGS / VarDict
  VarDict
  ☆187Updated 10 months ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆120Updated 4 years ago
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆115Updated 2 years ago
• ablab / IsoQuant
  Transcript discovery and quantification with long RNA reads (Nanopores and PacBio)
  ☆153Updated this week
• getzlab / rnaseqc
  Fast, efficient RNA-Seq metrics for quality control and process optimization
  ☆150Updated 2 weeks ago
• ENCODE-DCC / long-rna-seq-pipeline
  STAR based ENCODE Long RNA-Seq processing pipeline
  ☆93Updated 3 years ago
• PacificBiosciences / IsoSeq
  Iso-Seq - Scalable De Novo Isoform Discovery from Single-Molecule PacBio Reads
  ☆192Updated 3 weeks ago
• BrooksLabUCSC / flair
  Full-Length Alternative Isoform analysis of RNA
  ☆213Updated this week