Alternatives and similar repositories for cacao

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

• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆23Updated 4 months ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years 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
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆16Updated 2 years ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 9 months ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated last month
• jamesware / alleleFrequencyApp
  Allele frequency filter app
  ☆14Updated 3 years ago
• churchill-lab / emase
  Expectation-Maximization algorithm for Allele-Specific Expression
  ☆21Updated 2 years ago
• gzhmat / ShinyCNV
  a Shiny/R application to view and annotate copy number variations
  ☆28Updated 2 years ago
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆24Updated 2 years ago
• annaquaglieri16 / varikondo
  R package to organise and standardise your genomic variant calls obtained with different callers.
  ☆11Updated 6 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• jrflab / modules
  MSKCC Reis-Filho Lab pipeline thingy
  ☆18Updated 2 months ago
• viq854 / lichee
  Multi-sample cancer phylogeny reconstruction
  ☆36Updated 8 years ago
• myriad-opensource / samwell
  Samwell: a python package for using genomic files... well
  ☆20Updated 3 years ago
• tgen / LumosVar
  ☆11Updated 7 years ago
• favorov / stereogene
  ☆14Updated 3 months ago
• seandavi / SRAdbV2
  R Interface to the NCBI SRA metadata
  ☆23Updated 7 years ago
• d3b-center / annoFuse
  Filter and prioritize fusion calls
  ☆20Updated last year
• COMBINE-lab / shoal
  Improved multi-sample transcript abundance estimates using adaptive priors
  ☆20Updated 7 years ago
• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated 2 weeks ago
• ImperialCardioGenetics / frequencyFilter
  Allele frequency filtering for Mendelian variant discovery
  ☆18Updated 9 years ago
• uclahs-cds / tool-NFTest
  CLI to automate Nextflow pipeline testing
  ☆12Updated 2 weeks ago
• jmw86069 / splicejam
  Sashimi plots for RNA-seq data using detected transcripts
  ☆29Updated 8 months ago
• ProSolo / prosolo
  ProSolo, variant calling from single cell DNA-seq data, or: bulk backing vocals for single cell solos.
  ☆21Updated 4 years ago
• jbelyeu / unfazed
  Unfazed by genomic variant phasing
  ☆27Updated last year
• carjed / helmsman
  highly-efficient & lightweight mutation signature matrix aggregation
  ☆19Updated 3 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆25Updated 7 years ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆37Updated 5 years ago