Alternatives and similar repositories for pcawg_delly_workflow

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

• yuchaojiang / MARATHON
  Integrative pipeline for profiling DNA copy number and inferring tumor phylogeny
  ☆20Updated 5 years ago
• reiterlab / treeomics
  Decrypting somatic mutation patterns to reveal the evolution of cancer
  ☆56Updated 4 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…
  ☆45Updated 2 years ago
• grocsvs / grocsvs
  Genome-wide reconstruction of complex structural variants
  ☆39Updated 3 years ago
• pachterlab / kma
  Keep Me Around: Intron Retention Detection
  ☆29Updated 6 years ago
• Oshlack / STRetch
  Method for detecting STR expansions from short-read sequencing data
  ☆63Updated 3 years ago
• aehrc / TRIBES
  Finding cryptic relationships to boost disease gene detection
  ☆12Updated 2 years ago
• aquaskyline / 16GT
  Simultaneous detection of SNPs and Indels using a 16-genotype probabilistic model
  ☆27Updated last year
• cdarby / samovar
  Somatic (mosaic) SNV caller for 10X Genomics data using random forest classification and feature-based filters
  ☆24Updated 6 years ago
• jeremymcrae / clinical-filter
  filtering trio-based genetic variants in VCFs for clinical review
  ☆21Updated 4 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated 8 months ago
• KCCG / mity
  mity: A highly sensitive mitochondrial variant analysis pipeline for whole genome sequencing data
  ☆36Updated last month
• brwnj / umitools
  Tools to handle reads sequenced with unique molecular identifiers (UMIs).
  ☆30Updated 8 years ago
• talkowski-lab / SV-Adjudicator
  ☆25Updated 7 years ago
• macarthur-lab / tx_annotation
  Code associated with 2019 manuscript entitled "Transcript expression-aware annotation improves rare variant discovery and interpretation…
  ☆33Updated 3 years ago
• broadinstitute / fiss
  FireCloud Service Selector (FISS) -- Python bindings and CLI for FireCloud execution engine
  ☆31Updated 4 months ago
• rhshah / iCallSV
  A Framework to call Structural Variants from NGS based datasets
  ☆22Updated 7 years ago
• ccgd-profile / BreaKmer
  A method to identify structural variation from sequencing data in target regions
  ☆32Updated 4 years ago
• statgen / topmed_freeze3_calling
  TOPMed Freeze 3 variant calling pipeline
  ☆9Updated 6 years ago
• talkowski-lab / svtk
  ☆35Updated 4 years ago
• stjude / cis-x
  Search for activating regulatory variants in the tumor genome
  ☆14Updated 4 months ago
• CGGOxford / Opossum
  Opossum is a tool to pre-process RNA-seq reads prior to variant calling.
  ☆28Updated 7 years ago
• 10XGenomics / longranger
  10x Genomics Linked-Read Alignment, Variant Calling, Phasing, and Structural Variant Calling
  ☆32Updated 5 years ago
• etal / cnvkit-examples
  Example datasets for CNVkit (http://github.com/etal/cnvkit)
  ☆23Updated 6 years ago
• gersteinlab / aloft
  ALOFT, the Annotation Of Loss-of-Function Transcripts, provides extensive functional annotations to loss-of-function variants in the hum…
  ☆19Updated 5 years ago
• gzhmat / ShinyCNV
  a Shiny/R application to view and annotate copy number variations
  ☆28Updated 2 years ago
• ChristopherWilks / snaptron
  fast webservices based query tool for large sets of genomic features
  ☆25Updated 3 months ago
• rthurman / hotspot
  Hotspot is a program for identifying genomic regions of local enrichment of short-read sequence tags.
  ☆16Updated 11 years ago
• pachterlab / kallisto_paper_analysis
  Analysis from kallisto paper
  ☆32Updated 9 years ago
• bergmanlab / ngs_te_mapper
  Software for detecting transposable element insertions from next-generation sequencing data
  ☆14Updated 4 years ago