Alternatives and similar repositories for pileup2base

Users that are interested in pileup2base are comparing it to the libraries listed below

• jrflab / modules
  MSKCC Reis-Filho Lab pipeline thingy
  ☆17Updated 2 months ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 4 months ago
• WGLab / SeqMule
  Automated human exome/genome variants detection from FASTQ files
  ☆22Updated 3 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆26Updated 7 years ago
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• smped / ngsReports
  ☆22Updated last month
• smshuai / DriverPower
  DriverPower
  ☆26Updated 6 months ago
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆35Updated 2 years ago
• ccbiolab / svpluscnv
  Integrative analysis of complex structural variants
  ☆22Updated 4 years ago
• mikessh / mageri
  MAGERI - Assemble, align and call variants for targeted genome re-sequencing with unique molecular identifiers
  ☆21Updated 8 years ago
• mskcc / facets-suite
  Utility functions for FACETS
  ☆38Updated last year
• sigven / cacao
  Callable Cancer Loci - assessment of sequencing coverage for actionable and pathogenic loci in cancer
  ☆21Updated 4 years ago
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆22Updated last year
• TranslationalBioinformaticsIGTP / CNVbenchmarkeR
  Framework to benchmark algorithms when detecting germline copy number variations (CNVs) from NGS data
  ☆14Updated 6 months ago
• d3b-center / annoFuse
  Filter and prioritize fusion calls
  ☆20Updated 9 months ago
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆24Updated last month
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆43Updated 3 years ago
• umccr / vcf_stuff
  📊Evaluating, filtering, comparing, and visualising VCF
  ☆28Updated 2 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• jmonlong / PopSV
  Population-based detection of structural variation from High-Throughput Sequencing.
  ☆31Updated 2 years ago
• beroukhim-lab / ascets
  This repository contains the code to run the ASCETS arm-level copy number events caller for targeted sequencing data. ASCETS produces arm…
  ☆16Updated last year
• sdchandra / CNAclinic
  ☆24Updated 11 months ago
• rhshah / iAnnotateSV
  iAnnotateSV is a Python library and command-line software toolkit to annotate and visualize structural variants detected from Next Genera…
  ☆16Updated 3 months ago
• statgen / topmed_variant_calling
  ☆24Updated 7 months ago
• nghiavtr / FuSeq
  ☆33Updated 3 years ago
• caravagnalab / CNAqc
  CNAqc - Copy Number Alteration (CNA) Quality Check package
  ☆22Updated last month
• stianlagstad / chimeraviz
  chimeraviz is an R package that automates the creation of chimeric RNA visualizations.
  ☆37Updated last year
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆38Updated 4 years ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated 5 months ago