Alternatives and similar repositories for HLApers

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

• NCGG-MGC / IMSindel
  IMSindel: An accurate intermediate-size indel detection tool incorporating de novo assembly and gapped global-local alignment with split …
  ☆16Updated 2 years ago
• vpc-ccg / svict
  Structural Variation and fusion detection using targeted sequencing data from circulating cell free DNA
  ☆29Updated last year
• J35P312 / FindSV
  Structural variant pipeline
  ☆17Updated 5 years ago
• czc / nb_distribution
  novoBreak: local assembly for breakpoint detection in cancer genomes
  ☆25Updated 7 years ago
• Genomon-Project / GenomonSV
  structure detection program
  ☆17Updated 11 months ago
• isugifNF / GATK-flow
  Nextflow implementation of the GATK HaplotypeCaller pipeline
  ☆13Updated 3 months ago
• griffithlab / VAtools
  A set of tools to annotate VCF files with expression and readcount data
  ☆29Updated 7 months ago
• polyactis / Accucopy
  Accucopy is a computational method that infers Allele-Specific Copy Number alterations from low-coverage low-purity tumor sequencing data…
  ☆17Updated last year
• ccbiolab / svpluscnv
  Integrative analysis of complex structural variants
  ☆22Updated 5 years ago
• guigolab / bamstats
  A command line tool to compute mapping statistics from a BAM file
  ☆25Updated 3 years ago
• Kingsford-Group / squid
  SQUID detects both fusion-gene and non-fusion-gene structural variations from RNA-seq data
  ☆42Updated 3 years ago
• nygenome / Lancet2
  v2.x of the microassembly based somatic variant caller
  ☆23Updated 3 months ago
• gzhmat / ShinyCNV
  a Shiny/R application to view and annotate copy number variations
  ☆28Updated 2 years ago
• ExpressionAnalysis / HLAProfiler
  Using k-mers to call HLA alleles in RNA sequencing data
  ☆23Updated 7 years ago
• dermasugita / Viola-SV
  Viola is a flexible and powerful python package designed specifically for analysis of genomic structural variant (SV) signatures.
  ☆26Updated last year
• bartongroup / 2passtools
  Two pass alignment for long reads
  ☆22Updated 4 years ago
• statgen / fivex
  Interactive eQTL visualizations
  ☆13Updated 2 years ago
• vpc-ccg / calib
  Calib clusters barcode tagged paired-end reads based on their barcode and sequence similarity.
  ☆39Updated 2 years ago
• jiujiezz / tsnad
  Detecting somatic mutations and predicting tumor-specific neo-antigens
  ☆29Updated 4 years ago
• Oshlack / MINTIE
  Method for Identifying Novel Transcripts and Isoforms using Equivalence classes, in cancer and rare disease.
  ☆36Updated last year
• 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 3 years ago
• sigven / vcf2tsvpy
  Genomic VCF to tab-separated values
  ☆47Updated 2 years ago
• bioinform / ecTMB
  ☆18Updated 4 years ago
• viq854 / lichee
  Multi-sample cancer phylogeny reconstruction
  ☆35Updated 8 years ago
• qiukunlong / seeksv
  A bioinformatics tool for SV detection and virus integration discovery
  ☆21Updated 8 years ago
• mcfrith / dnarrange
  ☆16Updated 9 months ago
• brentp / seqcover
  seqcover allows users to view coverage for hundreds of genes and dozens of samples
  ☆52Updated 4 years ago
• HurlesGroupSanger / indelible
  Structural Variation breakpoint discovery via adaptive learning
  ☆16Updated 2 years ago
• HuntsmanCancerInstitute / USeq
  180+ Java applications for analyzing next generation sequencing data from ChIPSeq, RNASeq, BisSeq, DNASeq, variant annotation/ filtering,…
  ☆18Updated last month
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago