skandlab / SMuRF

Related projects ⓘ

Alternatives and complementary repositories for SMuRF

• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated last year
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated last month
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆16Updated 4 years ago
• KChen-lab / Texomer
  Texomer: Integrating Analysis of Cancer Genome and Transcriptome Sequencing Data
  ☆20Updated 4 years ago
• d3b-center / annoFuse
  Filter and prioritize fusion calls
  ☆20Updated last month
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆28Updated 5 years ago
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆18Updated 4 months ago
• KhiabanianLab / All-FIT
  All-FIT - Allele-Frequency-based Imputation of Tumor Purity
  ☆17Updated 5 years ago
• eyzhao / hrdetect-pipeline
  ☆33Updated 5 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆38Updated last year
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆15Updated 10 months ago
• asoltis / MutEnricher
  Somatic coding and non-coding mutation enrichment analysis for tumor WGS data
  ☆10Updated 3 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆33Updated last year
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆25Updated 2 months ago
• AlexandrovLab / SigProfilerTopography
  SigProfilerTopography allows evaluating the effect of chromatin organization, histone modifications, transcription factor binding, DNA re…
  ☆19Updated last month
• smshuai / DriverPower
  DriverPower
  ☆26Updated 5 months ago
• PoisonAlien / somaticfreq
  knowledge-based genotyping of cancer hotspots from the tumor BAM files
  ☆20Updated 2 years ago
• gersteinlab / siglasso
  Optimizing Cancer Mutation Signatures Jointly with Sampling Likelihood
  ☆10Updated 2 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆27Updated last year
• vanallenlab / retained-intron-neoantigen-pipeline
  Pipeline to call neoantigens from intron retention events derived from RNA-Seq data.
  ☆28Updated 3 years ago
• parklab / MSIprofiler
  Repo that aids in the detection of microsatellite instabilities (MSI) from sequencing data
  ☆20Updated 7 months ago
• pdxgx / neoepiscope
  predicts neoepitopes from phased somatic mutations detected using tumor/normal DNA-seq data
  ☆26Updated last year
• Niinleslie / MesKit
  A tool kit for dissecting cancer evolution from multi-region derived tumor biopsies via somatic mutations
  ☆35Updated 2 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆41Updated 2 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated last year
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 6 years ago
• morrislab / TrackSig
  A framework to infer mutational signatures in cancer over time
  ☆53Updated 5 years ago
• mskilab-org / dryclean
  Irons out wrinkles in noisy coverage data using robust PCA
  ☆12Updated 2 months ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆12Updated 3 weeks ago
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆27Updated last year