Alternatives and similar repositories for HLAminer

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

• ccagc / QDNAseq
  QDNAseq package for Bioconductor
  ☆52Updated last year
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆51Updated 2 weeks ago
• ctsa / svtools
  Tools for processing and analyzing structural variants.
  ☆33Updated 10 years ago
• a2iEditing / RNAEditingIndexer
  A tool for the calculation of RNA-editing index for RNA seq data
  ☆45Updated last week
• SyntekabioTools / HLAscan
  ☆25Updated 5 years ago
• KCCG / ClinSV
  Robust detection of clinically relevant structural and copy number variation from whole genome sequencing data
  ☆73Updated last year
• Jeltje / varscan2
  Scripts to run copynumber variation calls on tumor and normal BAM files using Varscan2
  ☆29Updated 7 years ago
• RahmanTeam / DECoN
  ☆54Updated 2 years ago
• zd1 / telseq
  A software for calculating telomere length
  ☆72Updated 7 years ago
• cphgeno / CNVbench
  Benchmarking of CNV calling tools
  ☆18Updated 6 years ago
• mskcc / lohhla
  Fork from https://bitbucket.org/mcgranahanlab/lohhla/src, modified for MSKCC needs
  ☆31Updated 2 years ago
• patidarr / ngs_pipeline
  Exome/Capture/RNASeq Pipeline Implementation using snakemake
  ☆47Updated 7 years ago
• mskilab-org / JaBbA
  MIP based joint inference of copy number and rearrangement state in cancer whole genome sequence data.
  ☆59Updated 7 months ago
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• zhqingit / giremi
  GIREMI is a method that can identify RNA editing sites using one RNA-seq data set without requiring genome sequence data.
  ☆44Updated 8 years ago
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆58Updated last year
• smithlabcode / dnmtools
  Tools for analyzing DNA methylation data
  ☆44Updated this week
• ikalatskaya / ISOWN
  ☆46Updated 5 years ago
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 6 years ago
• hartwigmedical / pipeline5
  ☆21Updated 2 weeks ago
• ferrannadeu / IgCaller
  Python program designed to reconstruct immunoglobulin gene rearrangements and oncogenic translocations from WGS, WES and capture NGS in l…
  ☆20Updated 2 years ago
• hellbelly / BS-Snper
  ☆38Updated 4 years ago
• BioinfoUNIBA / REDItools2
  ☆59Updated 3 months ago
• Magdoll / SQANTI2
  SQANTI2 is now replaced by SQANTI3. Please go to: https://github.com/ConesaLab/SQANTI3
  ☆38Updated 5 years ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 8 months ago
• nf-core / hlatyping
  Precision HLA typing from next-generation sequencing data
  ☆73Updated last week
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 3 years ago
• WGLab / LIQA
  Long-read Isoform Quantification and Analysis
  ☆38Updated 7 months ago
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆54Updated last week
• sdchandra / CNAclinic
  ☆26Updated last year