Alternatives and similar repositories for HLA-LA:

Users that are interested in HLA-LA are comparing it to the libraries listed below

• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆144Updated last week
• ndaniel / fusioncatcher
  Finder of Somatic Fusion Genes in RNA-seq data
  ☆145Updated last year
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆158Updated 7 months ago
• broadinstitute / gatk-sv
  A structural variation pipeline for short-read sequencing
  ☆183Updated this week
• GenomeRIK / tama
  Transcriptome Annotation by Modular Algorithms (for long read RNA sequencing data)
  ☆144Updated last year
• hall-lab / svtools
  Tools for processing and analyzing structural variants.
  ☆150Updated 2 years ago
• humanlongevity / HLA
  xHLA: Fast and accurate HLA typing from short read sequence data
  ☆108Updated last year
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆196Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆112Updated 8 months ago
• gagneurlab / drop
  Pipeline to find aberrant events in RNA-Seq data, useful for diagnosis of rare disorders
  ☆139Updated 2 weeks ago
• mkirsche / Jasmine
  Jasmine: SV Merging Across Samples
  ☆208Updated 3 months ago
• OpenGene / GeneFuse
  Gene fusion detection and visualization
  ☆122Updated 3 years ago
• lgmgeo / AnnotSV
  Annotation and Ranking of Structural Variation
  ☆248Updated 2 weeks ago
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆129Updated 9 months ago
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 3 years ago
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆96Updated 10 months ago
• niu-lab / msisensor2
  Microsatellite instability (MSI) detection for tumor only data.
  ☆102Updated 11 months ago
• walaj / svaba
  Structural variation and indel detection by local assembly
  ☆244Updated last week
• Illumina / ExpansionHunterDenovo
  A suite of tools for detecting expansions of short tandem repeats
  ☆80Updated last year
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆111Updated 3 months ago
• gymreklab / GangSTR
  A tool for profiling long STRs from short reads
  ☆96Updated 3 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆147Updated 7 months ago
• gpertea / gffcompare
  classify, merge, tracking and annotation of GFF files by comparing to a reference annotation GFF
  ☆212Updated 8 months ago
• nf-core / smrnaseq
  A small-RNA sequencing analysis pipeline
  ☆80Updated 3 weeks ago
• stevekm / IGV-snapshot-automator
  Script to automatically create and run IGV snapshot batchscripts
  ☆140Updated 2 years ago
• RabadanLab / arcasHLA
  Fast and accurate in silico inference of HLA genotypes from RNA-seq
  ☆126Updated 7 months ago
• nanoporetech / pipeline-transcriptome-de
  Pipeline for differential gene expression (DGE) and differential transcript usage (DTU) analysis using long reads
  ☆108Updated 2 years ago
• Oshlack / JAFFA
  JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions
  ☆92Updated 7 months ago
• epi2me-labs / wf-human-variation
  ☆113Updated this week