tommyau / itdseek

Related projects ⓘ

Alternatives and complementary repositories for itdseek

• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆55Updated 2 weeks ago
• friend1ws / EBCall
  an empirical Bayesian framework for mutation detection from cancer genome sequencing data
  ☆31Updated 8 years ago
• naumanjaved / fingerprint_maps
  Create "haplotype maps" of variants in order to use with Picardtools Crosscheck_Files utility, which allows for robust genotyping of func…
  ☆24Updated 10 months ago
• zeeev / mergeSVcallers
  heuristics to merge structural variant calls in VCF format.
  ☆35Updated 8 years ago
• fakedrtom / SVAFotate
  ☆39Updated last month
• ikalatskaya / ISOWN
  ☆45Updated 4 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆65Updated 2 months ago
• ken0-1n / Genomon-ITDetector
  for detecting internal tandem duplication from genome sequence data.
  ☆11Updated 5 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆54Updated 10 months ago
• brwnj / covviz
  Multi-sample genome coverage viewer to observe large, coverage-based anomalies alongside annotations and sample metadata
  ☆56Updated 2 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆65Updated last year
• sfu-compbio / sinvict
  SiNVICT: Ultra-Sensitive Detection of Single Nucleotide Variants and Indels in Circulating Tumour DNA
  ☆27Updated 4 years ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆32Updated 9 years ago
• ryanlayer / stix
  Structural Variant Index
  ☆69Updated last week
• babelomics / SMAca
  SMN1 copy-number and sequence variant analysis from next generation sequencing data
  ☆21Updated last year
• pughlab / ConsensusCruncher
  ConsensusCruncher is a tool that suppresses errors in next-generation sequencing data by using unique molecular identifiers (UMIs) to ama…
  ☆21Updated 2 years ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆74Updated last year
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆25Updated 5 months ago
• tommyau / bamclipper
  Remove primer sequence from BAM alignments by soft-clipping
  ☆31Updated 4 years ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆45Updated 2 weeks ago
• GeneDx / scramble
  ☆36Updated 6 months ago
• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆48Updated 3 months ago
• bcbio / bcbio_validations
  Validation runs using bcbio: germline, somatic, structural variant calling and RNA-seq analyses
  ☆31Updated 2 years ago
• yuchaojiang / CODEX2
  Full-spectrum copy number variation detection by high-throughput DNA sequencing
  ☆37Updated 3 years ago
• pughlab / bamgineer
  Bamgineer: Introduction of simulated allele-specific copy number variants into exome and targeted sequence data sets
  ☆37Updated 4 years ago
• RahmanTeam / DECoN
  ☆50Updated last year
• cortes-ciriano-lab / ReConPlot
  ☆21Updated this week
• niu-lab / msisensor-ct
  Microsatellite instability (MSI) detection for cfDNA samples.
  ☆17Updated 3 years ago
• BimberLab / DISCVRSeq
  A collection of command line tools for working with sequencing data
  ☆50Updated last week