Alternatives and similar repositories for HATK

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

• WansonChoi / CookHLA
  An accurate and efficient HLA imputation method.
  ☆27Updated 2 years ago
• slagtermaarten / LOHHLA
  Fork of https://bitbucket.org/mcgranahanlab/lohhla
  ☆18Updated 5 years ago
• parklab / MuSiCal
  A comprehensive toolkit for mutational signature analysis
  ☆42Updated last year
• zhongw2 / GeneTEFlow
  ☆23Updated 4 years ago
• biosinodx / SCcaller
  Single Cell Caller (SCcaller) - Identify single nucleotide variations (SNVs) from single cell sequencing data
  ☆35Updated last year
• kgori / sigfit
  Flexible Bayesian inference of mutational signatures
  ☆38Updated 2 years ago
• morrislab / pairtree
  Pairtree is a method for reconstructing cancer evolutionary history in individual patients, and analyzing intratumor genetic heterogeneit…
  ☆42Updated last year
• chrisamiller / copyCat
  a parallel R package for detecting copy-number alterations from short sequencing reads
  ☆23Updated 4 years ago
• UMCUGenetics / CHORD
  An R package for predicting HR deficiency from mutation contexts
  ☆30Updated 10 months ago
• Wedge-lab / dpclust
  Dirichlet Process based methods for subclonal reconstruction of tumours
  ☆31Updated 9 months ago
• smshuai / DriverPower
  DriverPower
  ☆26Updated 11 months ago
• cortes-ciriano-lab / ReConPlot
  ☆24Updated last year
• oicr-gsi / sequenza
  Workflow for Sequenza, cellularity and ploidy
  ☆25Updated 4 months ago
• immunogenomics / HLA-TAPAS
  HLA-TAPAS pipeline for HLA association and fine-mapping studies
  ☆54Updated 2 years ago
• Xinglab / rMATS-long
  ☆34Updated last month
• QingliGuo / FFPEsig
  Codes and Data for FFPEsig manuscript
  ☆17Updated last year
• nghiavtr / FuSeq_WES
  ☆14Updated 2 years ago
• parklab / SCAN2
  SCAN2 is a somatic SNV and indel genotyper for single cells amplified by Primary Template-Directed Amplification (PTA)
  ☆17Updated 5 months ago
• markowetzlab / Drews2022_CIN_Compendium
  Main repository for Drews et al. (Nature, 2022)
  ☆42Updated 2 years ago
• umccr / umccrise
  DRAGEN Tumor/Normal workflow post-processing
  ☆25Updated 2 years ago
• khuranalab / CompositeDriver
  Combined mutation recurrence and functional impact to identify coding and non-coding cancer drivers
  ☆15Updated 7 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆32Updated 2 years ago
• battle-lab / twn_tsn
  Transcriptome-wide network
  ☆16Updated 6 years ago
• bioinform / ecTMB
  ☆18Updated 4 years ago
• smithlabcode / abismal
  Abismal is a mapper of FASTQ bisulfite-converted short reads (between 50 and 1000 bases) to a FASTA reference genome.
  ☆20Updated this week
• a2iEditing / deNovo-Detect
  ☆13Updated 3 years ago
• FJD-CEPH / aCNViewer
  Comprehensive genome-wide visualization of absolute copy number and copy neutral variations
  ☆29Updated 6 years ago
• MarWoes / wg-blimp
  wg-blimp: an end-to-end analysis pipeline for whole genome bisulfite sequencing data
  ☆28Updated 3 years ago
• ksamocha / de_novo_scripts
  Script used to identify de novo variants from sequencing data.
  ☆11Updated 8 years ago
• ChrisMaherLab / ClonEvol
  ☆13Updated 8 years ago