Alternatives and similar repositories for MARATHON:

Users that are interested in MARATHON are comparing it to the libraries listed below

• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆34Updated last month
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆29Updated 3 months ago
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆27Updated last year
• smshuai / DriverPower
  DriverPower
  ☆26Updated this week
• yuchaojiang / SCALE
  Allele-Specific Expression by Single-Cell RNA Sequencing
  ☆28Updated 4 years ago
• shawnzhangyx / PePr
  a peak-calling and differential analysis tool for replicated ChIP-Seq data
  ☆37Updated 2 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
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 3 years ago
• dan-landau / IronThrone-GoT
  processes GoT amplicon data and generates a table of metrics
  ☆27Updated 2 years ago
• hall-lab / gtex
  GTEx analysis scripts
  ☆20Updated 7 years ago
• KChen-lab / MonoVar
  Single nucleotide variant (SNV) detection and genotyping algorithm for single-cell DNA sequencing data
  ☆11Updated 4 years ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆33Updated last year
• Simon-Coetzee / motifBreakR
  A Package For Predicting The Disruptiveness Of Single Nucleotide Polymorphisms On Transcription Factor Binding Sites.
  ☆28Updated 5 months ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆27Updated last year
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆28Updated 5 years ago
• icbi-lab / Immunophenogram
  ☆40Updated 6 years ago
• reiterlab / treeomics
  Decrypting somatic mutation patterns to reveal the evolution of cancer
  ☆55Updated 3 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 6 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 2 years ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆39Updated last year
• NKI-GCF / XenofilteR
  Filtering of PDX samples for mouse derived reads
  ☆27Updated 2 years ago
• ParkerLab / atactk
  A toolkit for working with ATAC-seq data.
  ☆24Updated 7 months ago
• ding-lab / PanCanAtlasGermline
  ☆43Updated 6 years ago
• dphansti / mango
  chia pet analysis software
  ☆25Updated 6 years ago
• cfce / chilin
  ChIP-seq DC and QC Pipeline
  ☆34Updated 3 years ago
• mskcc / ngs-filters
  Filters for false-positive mutation calls in NGS
  ☆30Updated 5 years ago
• mbourgey / EBI_cancer_workshop_CNV
  hands-on for NGS/SNParray CNV call trainning
  ☆17Updated 2 years ago
• raphael-group / decifer
  DeCiFer is an algorithm that simultaneously selects mutation multiplicities and clusters SNVs by their corresponding descendant cell frac…
  ☆20Updated 7 months ago
• caravagnalab / mobster
  Model-based subclonal deconvolution from bulk sequencing.
  ☆33Updated 2 weeks ago